Diff of the two buildlogs:

--
--- b1/build.log	2025-03-07 17:31:07.183894743 +0000
+++ b2/build.log	2025-03-07 17:35:03.209265690 +0000
@@ -1,6 +1,6 @@
 I: pbuilder: network access will be disabled during build
-I: Current time: Fri Mar  7 05:25:21 -12 2025
-I: pbuilder-time-stamp: 1741368321
+I: Current time: Fri Apr 10 13:54:08 +14 2026
+I: pbuilder-time-stamp: 1775778848
 I: Building the build Environment
 I: extracting base tarball [/var/cache/pbuilder/trixie-reproducible-base.tgz]
 I: copying local configuration
@@ -26,52 +26,84 @@
 dpkg-source: info: applying set-zlib-after-setting-default-libs.patch
 I: Not using root during the build.
 I: Installing the build-deps
-I: user script /srv/workspace/pbuilder/3981261/tmp/hooks/D02_print_environment starting
+I: user script /srv/workspace/pbuilder/1589494/tmp/hooks/D01_modify_environment starting
+debug: Running on ionos5-amd64.
+I: Changing host+domainname to test build reproducibility
+I: Adding a custom variable just for the fun of it...
+I: Changing /bin/sh to bash
+'/bin/sh' -> '/bin/bash'
+lrwxrwxrwx 1 root root 9 Apr  9 23:54 /bin/sh -> /bin/bash
+I: Setting pbuilder2's login shell to /bin/bash
+I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other
+I: user script /srv/workspace/pbuilder/1589494/tmp/hooks/D01_modify_environment finished
+I: user script /srv/workspace/pbuilder/1589494/tmp/hooks/D02_print_environment starting
 I: set
-  BUILDDIR='/build/reproducible-path'
-  BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other'
-  BUILDUSERNAME='pbuilder1'
-  BUILD_ARCH='amd64'
-  DEBIAN_FRONTEND='noninteractive'
-  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=20 '
-  DISTRIBUTION='trixie'
-  HOME='/root'
-  HOST_ARCH='amd64'
+  BASH=/bin/sh
+  BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath
+  BASH_ALIASES=()
+  BASH_ARGC=()
+  BASH_ARGV=()
+  BASH_CMDS=()
+  BASH_LINENO=([0]="12" [1]="0")
+  BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:.
+  BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment")
+  BASH_VERSINFO=([0]="5" [1]="2" [2]="37" [3]="1" [4]="release" [5]="x86_64-pc-linux-gnu")
+  BASH_VERSION='5.2.37(1)-release'
+  BUILDDIR=/build/reproducible-path
+  BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other'
+  BUILDUSERNAME=pbuilder2
+  BUILD_ARCH=amd64
+  DEBIAN_FRONTEND=noninteractive
+  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 '
+  DIRSTACK=()
+  DISTRIBUTION=trixie
+  EUID=0
+  FUNCNAME=([0]="Echo" [1]="main")
+  GROUPS=()
+  HOME=/root
+  HOSTNAME=i-capture-the-hostname
+  HOSTTYPE=x86_64
+  HOST_ARCH=amd64
   IFS=' 	
   '
-  INVOCATION_ID='8b8ef65b4d6b43dbb3b43ef3174662e5'
-  LANG='C'
-  LANGUAGE='en_US:en'
-  LC_ALL='C'
-  MAIL='/var/mail/root'
-  OPTIND='1'
-  PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games'
-  PBCURRENTCOMMANDLINEOPERATION='build'
-  PBUILDER_OPERATION='build'
-  PBUILDER_PKGDATADIR='/usr/share/pbuilder'
-  PBUILDER_PKGLIBDIR='/usr/lib/pbuilder'
-  PBUILDER_SYSCONFDIR='/etc'
-  PPID='3981261'
-  PS1='# '
-  PS2='> '
+  INVOCATION_ID=c7e0b36f29824a97b6ff5a4e285e22f0
+  LANG=C
+  LANGUAGE=et_EE:et
+  LC_ALL=C
+  MACHTYPE=x86_64-pc-linux-gnu
+  MAIL=/var/mail/root
+  OPTERR=1
+  OPTIND=1
+  OSTYPE=linux-gnu
+  PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path
+  PBCURRENTCOMMANDLINEOPERATION=build
+  PBUILDER_OPERATION=build
+  PBUILDER_PKGDATADIR=/usr/share/pbuilder
+  PBUILDER_PKGLIBDIR=/usr/lib/pbuilder
+  PBUILDER_SYSCONFDIR=/etc
+  PIPESTATUS=([0]="0")
+  POSIXLY_CORRECT=y
+  PPID=1589494
   PS4='+ '
-  PWD='/'
-  SHELL='/bin/bash'
-  SHLVL='2'
-  SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.qyyl5JEe/pbuilderrc_tvjK --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.qyyl5JEe/b1 --logfile b1/build.log hyphy_2.5.69+dfsg-1.dsc'
-  SUDO_GID='110'
-  SUDO_UID='105'
-  SUDO_USER='jenkins'
-  TERM='unknown'
-  TZ='/usr/share/zoneinfo/Etc/GMT+12'
-  USER='root'
-  _='/usr/bin/systemd-run'
-  http_proxy='http://46.16.76.132:3128'
+  PWD=/
+  SHELL=/bin/bash
+  SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix
+  SHLVL=3
+  SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.qyyl5JEe/pbuilderrc_K4y1 --distribution trixie --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.qyyl5JEe/b2 --logfile b2/build.log hyphy_2.5.69+dfsg-1.dsc'
+  SUDO_GID=110
+  SUDO_UID=105
+  SUDO_USER=jenkins
+  TERM=unknown
+  TZ=/usr/share/zoneinfo/Etc/GMT-14
+  UID=0
+  USER=root
+  _='I: set'
+  http_proxy=http://213.165.73.152:3128
 I: uname -a
-  Linux ionos1-amd64 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux
+  Linux i-capture-the-hostname 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux
 I: ls -l /bin
-  lrwxrwxrwx 1 root root 7 Nov 22 14:40 /bin -> usr/bin
-I: user script /srv/workspace/pbuilder/3981261/tmp/hooks/D02_print_environment finished
+  lrwxrwxrwx 1 root root 7 Nov 22  2024 /bin -> usr/bin
+I: user script /srv/workspace/pbuilder/1589494/tmp/hooks/D02_print_environment finished
  -> Attempting to satisfy build-dependencies
  -> Creating pbuilder-satisfydepends-dummy package
 Package: pbuilder-satisfydepends-dummy
@@ -309,7 +341,7 @@
 Get: 182 http://deb.debian.org/debian trixie/main amd64 python3.13-dev amd64 3.13.2-1 [507 kB]
 Get: 183 http://deb.debian.org/debian trixie/main amd64 python3-dev amd64 3.13.2-1 [26.1 kB]
 Get: 184 http://deb.debian.org/debian trixie/main amd64 python3-all-dev amd64 3.13.2-1 [1068 B]
-Fetched 155 MB in 5s (33.1 MB/s)
+Fetched 155 MB in 9s (17.8 MB/s)
 Preconfiguring packages ...
 Selecting previously unselected package libpython3.13-minimal:amd64.
 (Reading database ... 
(Reading database ... 5%
(Reading database ... 10%
(Reading database ... 15%
(Reading database ... 20%
(Reading database ... 25%
(Reading database ... 30%
(Reading database ... 35%
(Reading database ... 40%
(Reading database ... 45%
(Reading database ... 50%
(Reading database ... 55%
(Reading database ... 60%
(Reading database ... 65%
(Reading database ... 70%
(Reading database ... 75%
(Reading database ... 80%
(Reading database ... 85%
(Reading database ... 90%
(Reading database ... 95%
(Reading database ... 100%
(Reading database ... 19800 files and directories currently installed.)
@@ -906,8 +938,8 @@
 Setting up tzdata (2025a-2) ...
 
 Current default time zone: 'Etc/UTC'
-Local time is now:      Fri Mar  7 17:27:10 UTC 2025.
-Universal Time is now:  Fri Mar  7 17:27:10 UTC 2025.
+Local time is now:      Thu Apr  9 23:55:13 UTC 2026.
+Universal Time is now:  Thu Apr  9 23:55:13 UTC 2026.
 Run 'dpkg-reconfigure tzdata' if you wish to change it.
 
 Setting up autotools-dev (20220109.1) ...
@@ -1077,7 +1109,11 @@
 Building tag database...
  -> Finished parsing the build-deps
 I: Building the package
-I: Running cd /build/reproducible-path/hyphy-2.5.69+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S  > ../hyphy_2.5.69+dfsg-1_source.changes
+I: user script /srv/workspace/pbuilder/1589494/tmp/hooks/A99_set_merged_usr starting
+Not re-configuring usrmerge for trixie
+I: user script /srv/workspace/pbuilder/1589494/tmp/hooks/A99_set_merged_usr finished
+hostname: Name or service not known
+I: Running cd /build/reproducible-path/hyphy-2.5.69+dfsg/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S  > ../hyphy_2.5.69+dfsg-1_source.changes
 dpkg-buildpackage: info: source package hyphy
 dpkg-buildpackage: info: source version 2.5.69+dfsg-1
 dpkg-buildpackage: info: source distribution unstable
@@ -1148,7 +1184,7 @@
   CMakeLists.txt:701 (makeLink)
 This warning is for project developers.  Use -Wno-dev to suppress it.
 
--- Configuring done (6.1s)
+-- Configuring done (2.7s)
 -- Generating done (0.1s)
 CMake Warning:
   Manually-specified variables were not used by the project:
@@ -1215,8 +1251,8 @@
   CMakeLists.txt:701 (makeLink)
 This warning is for project developers.  Use -Wno-dev to suppress it.
 
--- Configuring done (6.3s)
--- Generating done (0.1s)
+-- Configuring done (12.5s)
+-- Generating done (0.2s)
 CMake Warning:
   Manually-specified variables were not used by the project:
 
@@ -1280,7 +1316,7 @@
   CMakeLists.txt:701 (makeLink)
 This warning is for project developers.  Use -Wno-dev to suppress it.
 
--- Configuring done (3.6s)
+-- Configuring done (6.9s)
 -- Generating done (0.1s)
 CMake Warning:
   Manually-specified variables were not used by the project:
@@ -1301,7 +1337,7 @@
    debian/rules override_dh_auto_build
 make[1]: Entering directory '/build/reproducible-path/hyphy-2.5.69+dfsg'
 dh_auto_build -- MP MPI
-	cd obj-x86_64-linux-gnu && make -j20 "INSTALL=install --strip-program=true" MP MPI VERBOSE=1
+	cd obj-x86_64-linux-gnu && make -j42 "INSTALL=install --strip-program=true" MP MPI VERBOSE=1
 make[2]: Entering directory '/build/reproducible-path/hyphy-2.5.69+dfsg/obj-x86_64-linux-gnu'
 /usr/bin/cmake -S/build/reproducible-path/hyphy-2.5.69+dfsg -B/build/reproducible-path/hyphy-2.5.69+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0
 make  -f CMakeFiles/Makefile2 MP
@@ -1316,89 +1352,89 @@
 make[5]: Leaving directory '/build/reproducible-path/hyphy-2.5.69+dfsg/obj-x86_64-linux-gnu'
 make  -f CMakeFiles/hyphy.dir/build.make CMakeFiles/hyphy.dir/build
 make[5]: Entering directory '/build/reproducible-path/hyphy-2.5.69+dfsg/obj-x86_64-linux-gnu'
-[  0%] Building CXX object CMakeFiles/hyphy.dir/src/core/_hyExecutionContext.cpp.o
 [  5%] Building CXX object CMakeFiles/hyphy.dir/src/core/avllist.cpp.o
-[  5%] Building CXX object CMakeFiles/hyphy.dir/src/core/avllistx_iterator.cpp.o
-[  5%] Building CXX object CMakeFiles/hyphy.dir/src/core/baseobj.cpp.o
-[  5%] Building CXX object CMakeFiles/hyphy.dir/src/core/alignment.cpp.o
-[  5%] Building CXX object CMakeFiles/hyphy.dir/src/core/associative_list.cpp.o
-[  5%] Building CXX object CMakeFiles/hyphy.dir/src/core/avllistxl_iterator.cpp.o
-[  5%] Building CXX object CMakeFiles/hyphy.dir/src/core/batchlan.cpp.o
-/usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__MP2__ -D__MP__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall  -fopenmp -Weffc++ -Wextra -Wall -w -Weffc++ -Wextra -Wall  -Wno-int-to-pointer-cast -MD -MT CMakeFiles/hyphy.dir/src/core/_hyExecutionContext.cpp.o -MF CMakeFiles/hyphy.dir/src/core/_hyExecutionContext.cpp.o.d -o CMakeFiles/hyphy.dir/src/core/_hyExecutionContext.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/core/_hyExecutionContext.cpp
+[  5%] Building CXX object CMakeFiles/hyphy.dir/src/core/dataset_filter_numeric.cpp.o
+[  5%] Building CXX object CMakeFiles/hyphy.dir/src/core/batchlanhelpers.cpp.o
+[  5%] Building CXX object CMakeFiles/hyphy.dir/src/core/constant.cpp.o
+[ 10%] Building CXX object CMakeFiles/hyphy.dir/src/core/dataset.cpp.o
+/usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__MP2__ -D__MP__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall  -fopenmp -Weffc++ -Wextra -Wall -w -Weffc++ -Wextra -Wall  -Wno-int-to-pointer-cast -MD -MT CMakeFiles/hyphy.dir/src/core/dataset_filter_numeric.cpp.o -MF CMakeFiles/hyphy.dir/src/core/dataset_filter_numeric.cpp.o.d -o CMakeFiles/hyphy.dir/src/core/dataset_filter_numeric.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/core/dataset_filter_numeric.cpp
+/usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__MP2__ -D__MP__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall  -fopenmp -Weffc++ -Wextra -Wall -w -Weffc++ -Wextra -Wall  -Wno-int-to-pointer-cast -MD -MT CMakeFiles/hyphy.dir/src/core/batchlanhelpers.cpp.o -MF CMakeFiles/hyphy.dir/src/core/batchlanhelpers.cpp.o.d -o CMakeFiles/hyphy.dir/src/core/batchlanhelpers.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/core/batchlanhelpers.cpp
 /usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__MP2__ -D__MP__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall  -fopenmp -Weffc++ -Wextra -Wall -w -Weffc++ -Wextra -Wall  -Wno-int-to-pointer-cast -MD -MT CMakeFiles/hyphy.dir/src/core/avllist.cpp.o -MF CMakeFiles/hyphy.dir/src/core/avllist.cpp.o.d -o CMakeFiles/hyphy.dir/src/core/avllist.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/core/avllist.cpp
-[ 10%] Building CXX object CMakeFiles/hyphy.dir/src/core/avllistx.cpp.o
-[ 10%] Building CXX object CMakeFiles/hyphy.dir/src/core/batchlanhelpers.cpp.o
-[ 10%] Building CXX object CMakeFiles/hyphy.dir/src/core/avllistxl.cpp.o
-[ 10%] Building CXX object CMakeFiles/hyphy.dir/src/core/category.cpp.o
+[ 15%] Building CXX object CMakeFiles/hyphy.dir/src/core/avllistx_iterator.cpp.o
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-[ 40%] Building CXX object CMakeFiles/hyphy.dir/src/core/likefuncocl.cpp.o
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-[ 45%] Building CXX object CMakeFiles/hyphy.dir/src/core/list.cpp.o
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-[ 60%] Building CXX object CMakeFiles/hyphy.dir/src/core/simplelist.cpp.o
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@@ -1416,10 +1452,10 @@
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-[ 55%] Building CXX object CMakeFiles/hyphy.dir/src/core/operation.cpp.o
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-[ 55%] Building CXX object CMakeFiles/hyphy.dir/src/core/parser.cpp.o
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-[ 55%] Building CXX object CMakeFiles/hyphy.dir/src/core/parser2.cpp.o
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-[ 55%] Building CXX object CMakeFiles/hyphy.dir/src/core/polynoml.cpp.o
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-[ 60%] Building CXX object CMakeFiles/hyphy.dir/src/core/simplelist.cpp.o
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-[ 60%] Building CXX object CMakeFiles/hyphy.dir/src/core/site.cpp.o
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@@ -1959,7 +1995,7 @@
 make[3]: Leaving directory '/build/reproducible-path/hyphy-2.5.69+dfsg/obj-avx'
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-	cd obj-sse3 && make -j20 "INSTALL=install --strip-program=true" MP MPI VERBOSE=1
+	cd obj-sse3 && make -j42 "INSTALL=install --strip-program=true" MP MPI VERBOSE=1
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 /usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__HYPHYMPI__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall   -fopenmp -Weffc++ -Wextra -Wall -w -Weffc++ -Wextra -Wall  -Wno-int-to-pointer-cast -MD -MT CMakeFiles/HYPHYMPI.dir/src/core/tree_evaluator.cpp.o -MF CMakeFiles/HYPHYMPI.dir/src/core/tree_evaluator.cpp.o.d -o CMakeFiles/HYPHYMPI.dir/src/core/tree_evaluator.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/core/tree_evaluator.cpp
-[ 75%] Building CXX object CMakeFiles/HYPHYMPI.dir/src/core/tree_iterator.cpp.o
-/usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__HYPHYMPI__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall   -fopenmp -Weffc++ -Wextra -Wall -w -Weffc++ -Wextra -Wall  -Wno-int-to-pointer-cast -MD -MT CMakeFiles/HYPHYMPI.dir/src/core/tree_iterator.cpp.o -MF CMakeFiles/HYPHYMPI.dir/src/core/tree_iterator.cpp.o.d -o CMakeFiles/HYPHYMPI.dir/src/core/tree_iterator.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/core/tree_iterator.cpp
 [ 75%] Building CXX object CMakeFiles/HYPHYMPI.dir/src/core/trie.cpp.o
 /usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__HYPHYMPI__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall   -fopenmp -Weffc++ -Wextra -Wall -w -Weffc++ -Wextra -Wall  -Wno-int-to-pointer-cast -MD -MT CMakeFiles/HYPHYMPI.dir/src/core/trie.cpp.o -MF CMakeFiles/HYPHYMPI.dir/src/core/trie.cpp.o.d -o CMakeFiles/HYPHYMPI.dir/src/core/trie.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/core/trie.cpp
 [ 80%] Building CXX object CMakeFiles/HYPHYMPI.dir/src/core/trie_iterator.cpp.o
@@ -2260,8 +2296,8 @@
 [ 90%] Building CXX object CMakeFiles/HYPHYMPI.dir/src/new/bgm2.cpp.o
 /usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__HYPHYMPI__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall   -fopenmp -Weffc++ -Wextra -Wall -MD -MT CMakeFiles/HYPHYMPI.dir/src/new/bgm2.cpp.o -MF CMakeFiles/HYPHYMPI.dir/src/new/bgm2.cpp.o.d -o CMakeFiles/HYPHYMPI.dir/src/new/bgm2.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/new/bgm2.cpp
 [ 90%] Building CXX object CMakeFiles/HYPHYMPI.dir/src/new/scfg.cpp.o
-[ 90%] Building CXX object CMakeFiles/HYPHYMPI.dir/src/utils/hyphyunixutils.cpp.o
 /usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__HYPHYMPI__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall   -fopenmp -Weffc++ -Wextra -Wall -MD -MT CMakeFiles/HYPHYMPI.dir/src/new/scfg.cpp.o -MF CMakeFiles/HYPHYMPI.dir/src/new/scfg.cpp.o.d -o CMakeFiles/HYPHYMPI.dir/src/new/scfg.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/new/scfg.cpp
+[ 90%] Building CXX object CMakeFiles/HYPHYMPI.dir/src/utils/hyphyunixutils.cpp.o
 /usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__HYPHYMPI__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall   -fopenmp -MD -MT CMakeFiles/HYPHYMPI.dir/src/utils/hyphyunixutils.cpp.o -MF CMakeFiles/HYPHYMPI.dir/src/utils/hyphyunixutils.cpp.o.d -o CMakeFiles/HYPHYMPI.dir/src/utils/hyphyunixutils.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/utils/hyphyunixutils.cpp
 [ 95%] Building CXX object CMakeFiles/HYPHYMPI.dir/src/contrib/mersenne_twister.cpp.o
 /usr/bin/c++ -D_HYPHY_LIBDIRECTORY_=\"/usr/share/hyphy\" -D_SLKP_LFENGINE_REWRITE_ -D_SLKP_USE_SSE_INTRINSICS -D__AFYP_REWRITE_BGM__ -D__HYPHYCURL__ -D__HYPHYMPI__ -D__UNIX__ -D__ZLIB__ -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/core/include -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/lib/Link -I/build/reproducible-path/hyphy-2.5.69+dfsg/src/new/include -I/usr/lib/x86_64-linux-gnu/openmpi/include -I/usr/lib/x86_64-linux-gnu/openmpi/include/openmpi -g -O2 -ffile-prefix-map=/build/reproducible-path/hyphy-2.5.69+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fsigned-char -O3 -D_FORTIFY_SOURCE=2   -Wall -std=c++14 -msse4.1  -g  -w -Weffc++ -Wextra -Wall   -fopenmp -MD -MT CMakeFiles/HYPHYMPI.dir/src/contrib/mersenne_twister.cpp.o -MF CMakeFiles/HYPHYMPI.dir/src/contrib/mersenne_twister.cpp.o.d -o CMakeFiles/HYPHYMPI.dir/src/contrib/mersenne_twister.cpp.o -c /build/reproducible-path/hyphy-2.5.69+dfsg/src/contrib/mersenne_twister.cpp
@@ -2300,9 +2336,9 @@
 		./run_unit_tests.sh ; \
 	fi ; \
 done
-'obj-avx/HYPHYMPI' -> './HYPHYMPI'
-'obj-avx/hyphy' -> './hyphy'
 'obj-avx/HYPHYMP' -> './HYPHYMP'
+'obj-avx/hyphy' -> './hyphy'
+'obj-avx/HYPHYMPI' -> './HYPHYMPI'
 ./tests/hbltests/UnitTests/HBLCommands/Abs.bf
 ./tests/hbltests/UnitTests/HBLCommands/Add.bf
 ./tests/hbltests/UnitTests/HBLCommands/Ampersand.bf
@@ -2405,9 +2441,9 @@
 ./tests/hbltests/UnitTests/HBLCommands/libv3_utilityfunctions.bf
 ./tests/hbltests/UnitTests/HBLCommands/namespace.bf
 \n\n------------------------ALL TEST PASSED------------------------------------\n
-'obj-sse3/HYPHYMPI' -> './HYPHYMPI'
-'obj-sse3/hyphy' -> './hyphy'
 'obj-sse3/HYPHYMP' -> './HYPHYMP'
+'obj-sse3/hyphy' -> './hyphy'
+'obj-sse3/HYPHYMPI' -> './HYPHYMPI'
 ./tests/hbltests/UnitTests/HBLCommands/Abs.bf
 ./tests/hbltests/UnitTests/HBLCommands/Add.bf
 ./tests/hbltests/UnitTests/HBLCommands/Ampersand.bf
@@ -2515,9 +2551,9 @@
 	-type f,l \
 	-executable \
 	-exec cp -v '{}' . \;
-'obj-x86_64-linux-gnu/HYPHYMPI' -> './HYPHYMPI'
-'obj-x86_64-linux-gnu/hyphy' -> './hyphy'
 'obj-x86_64-linux-gnu/HYPHYMP' -> './HYPHYMP'
+'obj-x86_64-linux-gnu/hyphy' -> './hyphy'
+'obj-x86_64-linux-gnu/HYPHYMPI' -> './HYPHYMPI'
 ./run_unit_tests.sh
 ./tests/hbltests/UnitTests/HBLCommands/Abs.bf
 ./tests/hbltests/UnitTests/HBLCommands/Add.bf
@@ -2626,7 +2662,7 @@
    dh_testroot -O--buildsystem=cmake
    dh_prep -O--buildsystem=cmake
    dh_auto_install -O--buildsystem=cmake
-	cd obj-x86_64-linux-gnu && make -j20 install DESTDIR=/build/reproducible-path/hyphy-2.5.69\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
+	cd obj-x86_64-linux-gnu && make -j42 install DESTDIR=/build/reproducible-path/hyphy-2.5.69\+dfsg/debian/tmp AM_UPDATE_INFO_DIR=no "INSTALL=install --strip-program=true"
 make[1]: Entering directory '/build/reproducible-path/hyphy-2.5.69+dfsg/obj-x86_64-linux-gnu'
 /usr/bin/cmake -S/build/reproducible-path/hyphy-2.5.69+dfsg -B/build/reproducible-path/hyphy-2.5.69+dfsg/obj-x86_64-linux-gnu --check-build-system CMakeFiles/Makefile.cmake 0
 make  -f CMakeFiles/Makefile2 preinstall
@@ -2637,487 +2673,487 @@
 /usr/bin/cmake -P cmake_install.cmake
 -- Install configuration: "None"
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/Beta
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/Lognormal
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/General Discrete
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/2 Bin Discrete
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/Beta-Gamma
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/Half Normal
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/aa.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/nuc.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/AAEFV
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/AAEFV/Estimated
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/AAEFV/Equal
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/AAEFV/Observed In Partition
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/AAEFV/Observed In Data Set
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/CodonEFV
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/CodonEFV/Observed Codon
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/CodonEFV/Equal
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/CodonEFV/Observed Nuc 3 params.
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/CodonEFV/Observed Nuc 9 params.
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/dinuc.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/NucEFV
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/NucEFV/Estimated
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/NucEFV/Equal
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/NucEFV/Observed In Partition
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/NucEFV/Observed In Data Set
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/codon.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Vertebratemtdna.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Flatworm_mtDNA.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Ciliate.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Blepharisma_Nuclear.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Yeast_mtDNA.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Euplotid_Nuclear.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Echinoderm_mtDNA.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Thraustochytrium_mtDNA.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Mold_mtDNA.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Invertebrate_mtDNA.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Ascidian_mtDNA.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Alt_Yeast_Nuclear.cod
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/CodonModelCompare.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TreeTools.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper2_mf.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SeqAlignShared.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SimilarityPlot.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/dNdSDistributionComparison.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/distanceRMethodNPBootstrap.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/CleanStopCodons.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/BranchSiteRELMultiModel.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/error-filter.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/BranchSiteREL.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/contrast-meme.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/MEME.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/SingleOmega.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX-Groups.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/contrast-fel.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/FUBAR.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/FADE.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/modules
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/io_functions.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/shared-load-file.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/grid_compute.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/selection_lib.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/PRIME.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/SLAC.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/FitMultiModel.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/FEL.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/aBSREL.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/BUSTED.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/all-terms.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/UtilityFunctions.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/parameters.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MG_GTR.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV_MH.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV_PROPERTIES.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV_TRIP.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/BS_REL.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MSS.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/rate_variation.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/frequencies.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/REV.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/empirical.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/LG.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/JC69.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/mt.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/WAG.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/gcpREV.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/HIV.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/JTT.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrix2dict_aux.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/model_functions.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA/GTR.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA/JC69.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA/HKY85.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA/GTR-MutSel.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/binary.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/binary
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/binary/empirical.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/binary/charbinary.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/stats.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/IOFunctions.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/convenience
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/convenience/matrix.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/convenience/random.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/convenience/math.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/convenience/regexp.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/function-loader.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/trees.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/genetic_code.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/mpi.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/alignments.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/estimators.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/mapping.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/distances.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/bayesgraph.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/ancestral.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MergeSites.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AnalyzeNucProtData.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ClusterAnalysis.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AddABias.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GA_CHC.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MolClockAllRoots.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AAModelComparison.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/DistanceMatrix.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Gateaux.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ConvertDataFile.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/TN84
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/Unaligned_LZ_FR
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/PC_RV
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/K2P
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_codon
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/T3P
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_aa
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/Modified_Nei_Gojobori
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/CodonTools.def
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/K2P_RV
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/PC_MH
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/TN93_RV
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/PC
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/CodonTools2.def
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/JC69
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/TN93
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/Nei_Gojobori
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/Unaligned_LZ
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_binary
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/CodonToolsMain.def
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/LHT.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/LRTRecombTest.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/molclockBootstrap.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentNucShared.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper1.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/NucModelCompare.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SlidingWindowAnalysis.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MGvsGY.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/selectModelParameters.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/LZ_Complexity.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/posteriors.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/CodonBivariateRateProcessor.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/readIndexFile.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ReduceDataSetMatrix.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GUI
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GUI/crayolaColors.def
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TopologySearchConstrained.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/categoryEcho.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/_MFReader_.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/CleanGaps.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/branchSwappingFunctions.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/RelativeRatio.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SM-2019.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_synvar.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M1.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma2.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/GY94.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/discreteGeneratorNoPS.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/discreteGenerator.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma2+Inv.def
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94GY94xREV_PARRIS_syn3.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/GY94.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREVxBivariate.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma2.def
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREV.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREVxBivariate_Multirate.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma2+Inv.def
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/discreteGenerator.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/discreteGeneratorNoPS.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/gamma1.def
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M3.def
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_synvar.def
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_syn3.def
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M2.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/LHT.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses/README_relative_prot_rates.md
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses/plusF_helper.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses/ProteinGTRFit_helper.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses/relative_prot_rates.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses/ProteinGTRFit.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentCodon.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/files.lst
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SM-2019.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/relrateBootstrap.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/dNdSRateAnalysis.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SandNSAmbigs.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/branchSwappingFunctions.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/PartitionDataFile.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SGEmulator.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/LEISR.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SimilarityPlot.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/DirectionalREL.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/BranchSiteREL.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ClusterAnalysis.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper1.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GA_CHC_Binary.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SGIvL.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AddABias.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/BivariateCodonRateAnalysis.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AnalyzeCodonData.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/CleanGaps.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/queryTree.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/MG94xREVxBivariate_Multirate.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/2RatesAnalyses/PARRIS_M1.def
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F81_binary.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/UniversalCode.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EIAA.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94w9.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters3.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGFreqsEstimator.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters2.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAREV_1
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGwEX.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/LCAP.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAA.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween+F.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/S4
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAUserFreqs.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F3x4.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/NRM.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customCF3x4.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94x2.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94with9freqs.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/PCH
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EX.dat
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/WAG_F.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F81.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Yang2000Distributions.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGwAA.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+MLFREQS.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAEqualInput
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtMAM.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAFreqs.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/JC69_binary.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F84P.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GRM.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/BranchSiteTemplate.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EX.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtMAM_F.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/reducedREV.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAF81
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/rtREV_F.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV_24_F.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/CF3x4.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F+omega.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16SvH.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Jones_F.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MEC.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin+F.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Custom_AA_empirical.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters5.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/chooseGeneticCode.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/TrN.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/fitness.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Default
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/JC69.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F84.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Dayhoff_F.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAREV
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/defineGamma.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HKY85.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAFreqs.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGwEX.ibf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/cpREV
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/HIVBetween
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/Dayhoff
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/HIVWithin
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/BLOSUM62
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/mtMAM
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/WAG
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/cpREV
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/LG
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/H5N1
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/VT
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/MtArt
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/modellist.ibf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/rtREV
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/BLOSUM62
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/mtMAM
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/JTT
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/mtREV24
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/MtArt
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/LCAP
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/HIVWithin
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/VT
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/IAV
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/modellist.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94custom.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/STGRM.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/K2P.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94customF3x4.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV_24.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/LCAP
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/H5N1
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalAA/WAG
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/JC69.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94w9.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/CF3x4.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F3x4.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/PCH
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EIAAFreq.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAEqualInput
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAF61.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAF61multiple.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtMAM_F.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Dayhoff.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/models.lst
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Custom_AA_empirical.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/UniversalCode.def
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Dayhoff_F.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customFreqs.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/rtREV_F.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/BranchSiteTemplate.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters2.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/K2P.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GRM.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F84.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F84P.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAREV
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/fitness.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAMuse95.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters4.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/KHG_ECM
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/KHG_ECMu
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16A
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/WAG.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EIAAFreq.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/rtREV.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Custom_AA.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HKY85.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/models.lst
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/defineHM.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customF1x4.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV_24.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EX.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAF81
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+MLFREQS.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/defineGamma.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin+F.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/NRM+Freqs.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAF61.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAMuse95.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/K3ST.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customF1x4.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/custm4x4.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/190
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16SvH.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/STGRM.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtMAM.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/S4
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/K3ST.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Jones_F.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/WAG_F.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94custom.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/LCAP.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/JC69_binary.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customCF3x4.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94x2.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Default
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F81_binary.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EIAA.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/ECM+F+omega.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/WAG.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGwAA.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EX.dat
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Yang2000Distributions.def
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/mtREV_24_F.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wEX.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAF61multiple.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters3.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94customFreqs.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Jones.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/NucModelCompare.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TestBranchDNDS.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/PairwiseRelativeRate.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/LZ_Complexity.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SingleBreakpointRecomb.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/partitionSequences.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/dNdSDistributionComparison.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentCodonShared.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/globalChecker.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TopologySearch.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/WANC.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/KHTest.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/BGM.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/RelativeRatio.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SequentialAddition.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GA_CHC.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/dSdNTreeTools.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TopologySearchConstrained.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/distanceMethodNPBootstrap.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_aa
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/CodonTools.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/TN84
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/PC_RV
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_binary
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/TN93
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/K2P
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/Unaligned_LZ_FR
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/K2P_RV
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/Modified_Nei_Gojobori
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/Unaligned_LZ
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/CodonTools2.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/CodonToolsMain.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/T3P
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/PC
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance_codon
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/PC_MH
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/JC69
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/TN93_RV
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/p_Distance
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Distances/Nei_Gojobori
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/TrN.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVwithin.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/NRM+Freqs.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAAUserFreqs.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNA16A
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/190
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters5.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/rtREV.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/KHG_ECMu
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/EmpiricalCodon/KHG_ECM
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MG94wAA.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/RNAREV_1
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/GY94customF3x4.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/Custom_AA.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/chooseGeneticCode.def
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/modelParameters.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/reducedREV.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/MGFreqsEstimator.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/NRM.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/F81.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TemplateModels/HIVbetween+F.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/LEISR.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/pairwiseDistanceEstimatorCounter.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AnalyzeNucDataFreq.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/dNdSBivariateRateAnalysis.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/NeighborJoining.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/last.date
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/_tipDater.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper1_mf.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ModelTest.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/IOFunctions.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/stats.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/UtilityFunctions.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/alignments.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/mapping.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/distances.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/genetic_code.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/bayesgraph.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/trees.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/mpi.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/ancestral.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/tasks/estimators.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/all-terms.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/convenience
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/convenience/math.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/convenience/random.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/convenience/matrix.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/convenience/regexp.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/binary.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/binary
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/binary/empirical.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/binary/charbinary.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/REV.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/empirical.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/JTT.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/mt.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/JC69.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/gcpREV.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/HIV.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/LG.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrices/WAG.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein/matrix2dict_aux.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/parameters.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/rate_variation.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/protein.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV_TRIP.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MG_GTR.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/BS_REL.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV_MH.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MG_REV_PROPERTIES.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/codon/MSS.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/model_functions.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA/GTR.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA/JC69.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA/HKY85.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/DNA/GTR-MutSel.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/models/frequencies.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/libv3/function-loader.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/BivariateCodonRateAnalysis.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/BGM.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/BranchSiteREL.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentCodon.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/PartitionDataFile.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/YangNielsenBranchSite2005.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/dNdSRateAnalysis.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/CodonToProtein.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/UpperBound.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/posteriors.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ConvertDataFile.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TreeCorrelationCoefficients.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SGIvL.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GARD.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/RelativeRate.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper2.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/_CMS_Aux.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/last.date
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SlidingWindowAnalysis.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/sir.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/lhc_supp.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/srs.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/lhc-ErrorEst.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/lhc.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/srs-ErrorEst.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/relative_nucleotide_rates.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/DistanceMatrix.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/CodonToProtein.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/binomial.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TestCladeMeans.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/distanceRMethodNPBootstrap.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/chooseDistanceFormula.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ModelTest.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper3.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MolClockAllRoots.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/relratioBootstrap.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/dNdSBivariateRateAnalysis.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ClusterByDistanceRange.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MSS-selector-2.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/molclockBootstrap.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/LRTRecombTest.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/heuristicMethodNPBootstrap.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/simpleBootstrap.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/readIndexFile.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper2_mf.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/relrateBootstrap.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TestClade.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionLRT.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/PARRIS.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/bayesgraph.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SingleBreakpointRecomb.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MergeSequences.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AnalyzeDiNucData.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/categoryEcho.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/doSPRSwap.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AnalyzeNucProtData.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentNucShared.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/pairwiseDistanceEstimatorCounter.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TreeCorrelationCoefficients.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MergeSequences.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TestClade.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/relratioBootstrap.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/partitionSequences.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TopologySearch.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/PairwiseRelativeRatio.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/distanceMethodNPBootstrap.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/PairwiseRelativeRate.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper2.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MSS-joint-fitter.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/dNdSResultProcessor.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Gateaux.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TestBranchDNDS.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MSS-selector-2.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SandNSAmbigs.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MSS-selector.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper4.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/files.lst
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TestCladeMeans.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/KHTest.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MolecularClock.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SGEmulator_MF.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GA_CHC_Binary.ibf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/pairwiseDistanceEstimator.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/F_ST.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/bayesgraph.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/_BMS_Aux.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SGASimProcessor.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/FitnessAAModels.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GUI
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GUI/crayolaColors.def
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/PairwiseRelativeRatio.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SimmondsAI.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/doNNISwap.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/TreeTools.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/heuristicMethodNPBootstrap.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/WANC.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper3.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MergeSites.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/FitnessAAModels.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/LocalMolClock.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AnalyzeCodonData.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper4.ibf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/ProbabilityDistributions.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/BranchLengthFitters.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/ReadDelimitedFiles.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/MPITools.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/CoalescentPostProcessor.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/PS_Plotters.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/AncestralMapper.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/HXB2Mapper.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/CodonTools.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/NJ.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/DescriptiveStatistics.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/AncestralMapper.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/ReadDelimitedFiles.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/PostScript.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/CodonTools.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/GrabBag.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/LocalMGREV.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/PS_Plotters.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/MPITools.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/ProbabilityDistributions.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/TreeFunctions.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/WriteDelimitedFiles.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/LocalMGREVMLFreqs.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/NJ.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/CoalescentPostProcessor.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/DBTools.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/_MFReader_.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/YangNielsenBranchSite2005.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ReduceDataSetMatrix.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/PARRIS.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AAModelComparison.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MSS-joint-fitter.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/qndhelper1_mf.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MolecularClock.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/NielsenYang.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/CleanStopCodons.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/LocalMGREVMLFreqs.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/HXB2Mapper.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Utility/WriteDelimitedFiles.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/_CMS_Aux.ibf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/datasets
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/datasets/Drosophilia_adh.nex
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/datasets/H5N1_HA_5.nex
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/BranchAPriori.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/WhatsInTheMean.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/NeutralExpectation.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/CountSubstitutions.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/Phylohandbook.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/ErrorEstimates.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/BranchAPriori.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/NucleotideBiases.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/LocalvsGlobal.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/LRT.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/WhatsInTheMean.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/EffectOfTopology.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/NucleotideBiases.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/dSdN.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/LRT.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GARD.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SGEmulator_MF.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionLRT.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SeqAlignShared.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GateauxMR.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/MGvsGY.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/CodonBivariateRateProcessor.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/selectModelParameters.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/LocalMolClock.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/NeighborJoining.bf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/AnalyzeNucDataFreq.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/ErrorEstimates.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/NeutralExpectation.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/CountSubstitutions.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/datasets
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/datasets/H5N1_HA_5.nex
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Miscellaneous/phylohandbook/datasets/Drosophilia_adh.nex
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ClusterByDistanceRange.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/dSdNTreeTools.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/_BMS_Aux.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SequentialAddition.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/DirectionalREL.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SequentialAddition.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/relative_nucleotide_rates.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/doNNISwap.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/FEL.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/SLAC.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/modules
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/grid_compute.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/shared-load-file.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/selection_lib.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/modules/io_functions.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX-Groups.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/PRIME.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/FUBAR.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/RELAX.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/BranchSiteREL.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/error-filter.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/aBSREL.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/SingleOmega.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/FitMultiModel.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/contrast-meme.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/contrast-fel.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/BUSTED.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/FADE.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SelectionAnalyses/MEME.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/CodonModelCompare.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/NielsenYang.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/GateauxMR.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SGEmulator.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/globalChecker.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/binomial.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses/plusF_helper.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses/ProteinGTRFit_helper.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses/relative_prot_rates.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses/ProteinGTRFit.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/ProteinAnalyses/README_relative_prot_rates.md
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SeqAlignmentCodonShared.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/SGASimProcessor.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/F_ST.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/chooseDistanceFormula.def
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/queryTree.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/sir.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/srs.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/srs-ErrorEst.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/lhc-ErrorEst.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/lhc_supp.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/TemplateBatchFiles/Samplers/lhc.bf
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid/Dayhoff.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid/mtREV.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid/Fitness.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid/EIAA.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid/Jones.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/HKY85.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/REVBetaGamma.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/EFVEstimated.ibf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/REV.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/TrN.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/F81.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Binary
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Binary/F81.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/User
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/User/Nucleotide
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/User/Nucleotide/K2P
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/User/Nucleotide/JC69
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/F81.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/REV.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/TrN.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/EFVEstimated.ibf
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/HKY85.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Nucleotide/REVBetaGamma.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94_HKY85x3_4.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/GY94_3x4.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94_3x4.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94_HKY85x3_4.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94_REV_3x4.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94xREV_3x4_DualRV_GDD.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/Lineage_MG94xHKY85.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94xREV_3x4_DualRV.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/GY94_3x4.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94xTN93_3x4.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94xREV_3x4_DualRV_GDD.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94xREV_3x4_DualRV.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94REVOmegaCF3x4.mdl
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Codon/MG94xHKY85_3x4_2Rates.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Binary
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Binary/F81.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid/EIAA.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid/Fitness.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid/Dayhoff.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid/mtREV.mdl
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionModels/Aminoacid/Jones.mdl
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/codon.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/Lognormal
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/2 Bin Discrete
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/Beta-Gamma
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/Beta
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/General Discrete
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/Heterogeneity/Half Normal
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/aa.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/dinuc.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/nuc.bf
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/NucEFV
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/NucEFV/Estimated
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/NucEFV/Equal
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/NucEFV/Observed In Data Set
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/NucEFV/Observed In Partition
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/AAEFV
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/AAEFV/Estimated
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/AAEFV/Equal
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/AAEFV/Observed In Data Set
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/AAEFV/Observed In Partition
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/CodonEFV
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/CodonEFV/Equal
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/CodonEFV/Observed Nuc 9 params.
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/CodonEFV/Observed Codon
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/SubstitutionClasses/CodonEFV/Observed Nuc 3 params.
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/data
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/data/integrase_BDA.nex
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/data/brown.nuc
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/data/p51.nex
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/data/p51.aa
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Invertebrate_mtDNA.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Flatworm_mtDNA.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Vertebratemtdna.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Thraustochytrium_mtDNA.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Ascidian_mtDNA.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Alt_Yeast_Nuclear.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Blepharisma_Nuclear.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Ciliate.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Yeast_mtDNA.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Euplotid_Nuclear.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Mold_mtDNA.cod
--- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/GeneticCodes/Echinoderm_mtDNA.cod
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/data/integrase_BDA.nex
+-- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/share/hyphy/data/p51.nex
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/bin/hyphy
 -- Installing: /build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/bin/HYPHYMPI
 -- Set non-toolchain portion of runtime path of "/build/reproducible-path/hyphy-2.5.69+dfsg/debian/tmp/usr/bin/HYPHYMPI" to ""
@@ -3184,10 +3220,10 @@
    dh_gencontrol -O--buildsystem=cmake
    dh_md5sums -O--buildsystem=cmake
    dh_builddeb -O--buildsystem=cmake
-dpkg-deb: building package 'hyphy-pt' in '../hyphy-pt_2.5.69+dfsg-1_amd64.deb'.
 dpkg-deb: building package 'hyphy-pt-dbgsym' in '../hyphy-pt-dbgsym_2.5.69+dfsg-1_amd64.deb'.
-dpkg-deb: building package 'hyphy-mpi-dbgsym' in '../hyphy-mpi-dbgsym_2.5.69+dfsg-1_amd64.deb'.
+dpkg-deb: building package 'hyphy-pt' in '../hyphy-pt_2.5.69+dfsg-1_amd64.deb'.
 dpkg-deb: building package 'hyphy-mpi' in '../hyphy-mpi_2.5.69+dfsg-1_amd64.deb'.
+dpkg-deb: building package 'hyphy-mpi-dbgsym' in '../hyphy-mpi-dbgsym_2.5.69+dfsg-1_amd64.deb'.
 dpkg-deb: building package 'hyphy-common' in '../hyphy-common_2.5.69+dfsg-1_all.deb'.
  dpkg-genbuildinfo --build=binary -O../hyphy_2.5.69+dfsg-1_amd64.buildinfo
  dpkg-genchanges --build=binary -O../hyphy_2.5.69+dfsg-1_amd64.changes
@@ -3196,12 +3232,14 @@
 dpkg-buildpackage: info: binary-only upload (no source included)
 dpkg-genchanges: info: including full source code in upload
 I: copying local configuration
+I: user script /srv/workspace/pbuilder/1589494/tmp/hooks/B01_cleanup starting
+I: user script /srv/workspace/pbuilder/1589494/tmp/hooks/B01_cleanup finished
 I: unmounting dev/ptmx filesystem
 I: unmounting dev/pts filesystem
 I: unmounting dev/shm filesystem
 I: unmounting proc filesystem
 I: unmounting sys filesystem
 I: cleaning the build env 
-I: removing directory /srv/workspace/pbuilder/3981261 and its subdirectories
-I: Current time: Fri Mar  7 05:31:05 -12 2025
-I: pbuilder-time-stamp: 1741368665
+I: removing directory /srv/workspace/pbuilder/1589494 and its subdirectories
+I: Current time: Fri Apr 10 13:58:01 +14 2026
+I: pbuilder-time-stamp: 1775779081