[med-svn] [plink2] 01/01: Initial debian/*
Dylan Aïssi
bob.dybian-guest at moszumanska.debian.org
Tue Jul 18 21:48:07 UTC 2017
This is an automated email from the git hooks/post-receive script.
bob.dybian-guest pushed a commit to branch master
in repository plink2.
commit dc4b0484f8db816e474c41d1b018211122d04035
Author: Dylan Aïssi <bob.dybian at gmail.com>
Date: Tue Jul 18 23:47:57 2017 +0200
Initial debian/*
---
debian/README.source | 11 +++
debian/changelog | 8 ++
debian/compat | 1 +
debian/control | 30 ++++++
debian/copyright | 166 ++++++++++++++++++++++++++++++++
debian/examples | 7 ++
debian/install | 2 +
debian/patches/Disable_opt.patch | 16 +++
debian/patches/Fix_Makefile.patch | 40 ++++++++
debian/patches/series | 2 +
debian/rules | 25 +++++
debian/source/format | 1 +
debian/upstream.docs/toy.map | 2 +
debian/upstream.docs/toy.ped | 2 +
debian/upstream.docs/upstream.changelog | 45 +++++++++
debian/upstream/metadata | 13 +++
debian/watch | 3 +
17 files changed, 374 insertions(+)
diff --git a/debian/README.source b/debian/README.source
new file mode 100644
index 0000000..d81f8a4
--- /dev/null
+++ b/debian/README.source
@@ -0,0 +1,11 @@
+How to rename the upstream sources
+=============================================
+
+uscan
+mv plink2_170717.orig.tar.xz \
+ plink2_2.00~a-170717.orig.tar.xz
+
+After uscan, you should add the version "2.00~a" to the filename.
+The version "2.00~a" is specified in the "plink2.cpp" file.
+
+ -- Dylan Aïssi <bob.dybian at gmail.com> Tue, 18 Jul 2017 23:32:40 +0200
diff --git a/debian/changelog b/debian/changelog
new file mode 100644
index 0000000..2b5378d
--- /dev/null
+++ b/debian/changelog
@@ -0,0 +1,8 @@
+plink2 (2.00~a-170717-1) UNRELEASED; urgency=medium
+
+ * Initial release. (Closes: #858947)
+ * TODO:
+ - add autopkgtest
+ - remove embedded zstd
+
+ -- Dylan Aïssi <bob.dybian at gmail.com> Tue, 18 Jul 2017 23:32:40 +0200
diff --git a/debian/compat b/debian/compat
new file mode 100644
index 0000000..f599e28
--- /dev/null
+++ b/debian/compat
@@ -0,0 +1 @@
+10
diff --git a/debian/control b/debian/control
new file mode 100644
index 0000000..b8b7b0f
--- /dev/null
+++ b/debian/control
@@ -0,0 +1,30 @@
+Source: plink2
+Section: science
+Priority: optional
+Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
+Uploaders: Dylan Aïssi <bob.dybian at gmail.com>
+Build-Depends: debhelper (>= 10),
+ help2man,
+ libatlas-base-dev,
+ liblapack-dev,
+ zlib1g-dev
+Standards-Version: 4.0.0
+Vcs-Browser: https://anonscm.debian.org/git/debian-med/plink2.git
+Vcs-Git: https://anonscm.debian.org/git/debian-med/plink2.git
+Homepage: https://www.cog-genomics.org/plink/2.0/
+
+Package: plink2
+Architecture: any-amd64 any-i386 armel armhf mipsel
+Depends: ${misc:Depends}, ${shlibs:Depends}
+Description: whole-genome association analysis toolset
+ plink expects as input the data from SNP (single nucleotide polymorphism)
+ chips of many individuals and their phenotypical description of a disease.
+ It finds associations of single or pairs of DNA variations with a phenotype
+ and can retrieve SNP annotation from an online source.
+ .
+ SNPs can evaluated individually or as pairs for their association with the
+ disease phenotypes. The joint investigation of copy number variations is
+ supported. A variety of statistical tests have been implemented.
+ .
+ plink2 is a comprehensive update of plink and plink1.9 with new algorithms
+ and new methods, faster and less memory consumer than the first plink.
diff --git a/debian/copyright b/debian/copyright
new file mode 100644
index 0000000..af17f6e
--- /dev/null
+++ b/debian/copyright
@@ -0,0 +1,166 @@
+Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
+Upstream-Name: PLINK 2
+Upstream-Contact: Christopher Chang <chrchang at alumni.caltech.edu>
+Source: https://www.cog-genomics.org/plink/2.0/
+#Comment: Exclude source code of the embedded zstd
+#Files-Excluded: zstd
+
+Files: *
+Copyright: 2005-2017 Shaun Purcell <plink at chgr.mgh.harvard.edu>, Christopher Chang
+License: GPL-3+
+
+Files: bgzf.*
+Copyright: 2008 Broad Institute (Bob Handsaker) / Massachusetts Institute of Technology
+ 2011-2012 Attractive Chaos <attractor at live.co.uk>
+ 2009-2014 Genome Research Ltd
+License: Expat
+
+Files: hfile.* hfile_internal.h hts_defs.h
+Copyright: 2013-2015 Genome Research Ltd (John Marshall <jm18 at sanger.ac.uk>)
+License: Expat
+
+Files: hts.h
+Copyright: 2012 Broad Institute
+ 2012-2014 Genome Research Ltd (Heng Li <lh3 at sanger.ac.uk>)
+License: Expat
+
+Files: khash.h
+Copyright: 2008-2011 Attractive Chaos <attractor at live.co.uk>
+License: Expat
+
+Files: plink2_common.cpp
+Copyright: 2005-2017 Shaun Purcell, Christopher Chang
+License: GPL-3+ and public-domain
+Comment: This file is under GPL-3+ excepted the algorithm MurmurHash3 from SMHasher (https://github.com/aappleby/smhasher)
+ which is written by Austin Appleby, and is placed in the public
+ domain. The author hereby disclaims copyright to this source code.
+
+License: public-domain
+ The author hereby disclaims copyright to this source code.
+
+Files: plink2_glm.cpp
+Copyright: 2005-2017 Shaun Purcell, Christopher Chang
+ 2009-2014 Shigeo Mitsunari <herumi at nifty.com> from the fast math library function posted at https://github.com/herumi/fmath
+License: GPL-3+ and BSD-3-Clause
+Comment: Only the part of the fast math library in under BSD-3-Clause
+
+Files: plink2_stats.cpp
+Copyright: 2005-2017 Shaun Purcell, Christopher Chang
+License: GPL-3+ and BSL-1.0 and GPL-2+
+Comment: Some portions are derived from the Boost library 1.60 (boost/math/special_functions/gamma.hpp
+ and boost/math/special_functions/detail/igamma_inverse.hpp) which are under the BSL-1.0.
+ SNPHWE2() and SNPHWEX() are licensed as GPL-2+.
+
+Files: SFMT.*
+Copyright: 2006-2012 Mutsuo Saito, Makoto Matsumoto, Hiroshima University and The University of Tokyo
+License: BSD-3-clause
+
+Files: debian/*
+Copyright: 2017 Dylan Aïssi <bob.dybian at gmail.com>
+License: GPL-3+
+
+License: GPL-3+
+ This package is free software; you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation; either version 3 of the License, or
+ (at your option) any later version.
+ .
+ This package is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License
+ along with this package; if not, write to the Free Software
+ Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA
+ .
+ On Debian systems, the complete text of the GNU General
+ Public License can be found in `/usr/share/common-licenses/GPL-3'.
+
+License: Expat
+ Permission is hereby granted, free of charge, to any person obtaining
+ a copy of this software and associated documentation files (the
+ "Software"), to deal in the Software without restriction, including
+ without limitation the rights to use, copy, modify, merge, publish,
+ distribute, sublicense, and/or sell copies of the Software, and to
+ permit persons to whom the Software is furnished to do so, subject to
+ the following conditions:
+ .
+ The above copyright notice and this permission notice shall be included
+ in all copies or substantial portions of the Software.
+ .
+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
+ EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF
+ MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT.
+ IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY
+ CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT,
+ TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE
+ SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE.
+
+License: BSD-3-clause
+ Redistribution and use in source and binary forms, with or without
+ modification, are permitted provided that the following conditions are met:
+ .
+ * Redistributions of source code must retain the above copyright notice,
+ this list of conditions and the following disclaimer.
+ * Redistributions in binary form must reproduce the above copyright notice,
+ this list of conditions and the following disclaimer in the documentation
+ and/or other materials provided with the distribution.
+ *Neither the name of the copyright holder nor the names of its contributors
+ may not be used to endorse or promote products derived from this software
+ without specific prior written permission.
+ .
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+ AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+ IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+ ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT OWNER OR CONTRIBUTORS BE
+ LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
+ CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
+ SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
+ INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
+ CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
+ ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
+ POSSIBILITY OF SUCH DAMAGE.
+
+License: BSL-1.0
+ Boost Software License, Version 1.0
+ .
+ Permission is hereby granted, free of charge, to any person or organization
+ obtaining a copy of the software and accompanying documentation covered by
+ this license (the "Software") to use, reproduce, display, distribute,
+ execute, and transmit the Software, and to prepare derivative works of the
+ Software, and to permit third-parties to whom the Software is furnished to
+ do so, all subject to the following:
+ .
+ The copyright notices in the Software and this entire statement, including
+ the above license grant, this restriction and the following disclaimer,
+ must be included in all copies of the Software, in whole or in part, and
+ all derivative works of the Software, unless such copies or derivative
+ works are solely in the form of machine-executable object code generated by
+ a source language processor.
+ .
+ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+ IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+ FITNESS FOR A PARTICULAR PURPOSE, TITLE AND NON-INFRINGEMENT. IN NO EVENT
+ SHALL THE COPYRIGHT HOLDERS OR ANYONE DISTRIBUTING THE SOFTWARE BE LIABLE
+ FOR ANY DAMAGES OR OTHER LIABILITY, WHETHER IN CONTRACT, TORT OR OTHERWISE,
+ ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
+ DEALINGS IN THE SOFTWARE.
+
+License: GPL-2+
+ This package is free software; you can redistribute it and/or modify
+ it under the terms of the GNU General Public License as published by
+ the Free Software Foundation; either version 2 of the License, or
+ (at your option) any later version.
+ .
+ This package is distributed in the hope that it will be useful,
+ but WITHOUT ANY WARRANTY; without even the implied warranty of
+ MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
+ GNU General Public License for more details.
+ .
+ You should have received a copy of the GNU General Public License
+ along with this package; if not, write to the Free Software
+ Foundation, Inc., 51 Franklin St, Fifth Floor, Boston, MA 02110-1301 USA
+ .
+ On Debian systems, the complete text of the GNU General
+ Public License can be found in `/usr/share/common-licenses/GPL-2'.
diff --git a/debian/examples b/debian/examples
new file mode 100644
index 0000000..798efde
--- /dev/null
+++ b/debian/examples
@@ -0,0 +1,7 @@
+# Upstream samples files
+debian/upstream.docs/toy.ped
+debian/upstream.docs/toy.map
+
+# Expected outputs and script for autopkgtest
+debian/tests/run-sample-analysis
+debian/tests/output_tests/*
diff --git a/debian/install b/debian/install
new file mode 100644
index 0000000..9a20133
--- /dev/null
+++ b/debian/install
@@ -0,0 +1,2 @@
+build_dynamic/plink2 usr/bin/
+build_dynamic/pgen_compress usr/bin/
diff --git a/debian/patches/Disable_opt.patch b/debian/patches/Disable_opt.patch
new file mode 100644
index 0000000..ce6e669
--- /dev/null
+++ b/debian/patches/Disable_opt.patch
@@ -0,0 +1,16 @@
+Author: Dylan Aïssi <bob.dybian at gmail.com>
+Description: Not acceptable for a debian package.
+Last-Update: 2017-07-17
+Forwarded: not-needed
+
+--- a/build_dynamic/Makefile
++++ b/build_dynamic/Makefile
+@@ -11,7 +11,7 @@
+ # LD_LIBRARY_PATH to include the appropriate directories)
+ # 32-bit binary (also sets STATIC_ZLIB, ZSTD_O2, and NO_SSE42): FORCE_32BIT
+ # (warning: you may need to add a zconf.h symlink to make that work)
+-NO_SSE42 =
++NO_SSE42 = 1
+ NO_LAPACK =
+ PREFER_CBLAS_F77 =
+ ZSTD_O2 = 1
diff --git a/debian/patches/Fix_Makefile.patch b/debian/patches/Fix_Makefile.patch
new file mode 100644
index 0000000..60dc55c
--- /dev/null
+++ b/debian/patches/Fix_Makefile.patch
@@ -0,0 +1,40 @@
+Author: Dylan Aïssi <bob.dybian at gmail.com>
+Description: Take into account the user-provided compiler flags.
+Last-Update: 2017-07-17
+Forwarded: TODO
+
+--- a/build_dynamic/Makefile
++++ b/build_dynamic/Makefile
+@@ -36,11 +36,11 @@
+ ARCH32 = -m32 -march=i686
+ CXXFLAGS = -std=c++0x
+ else
+- CXXFLAGS = -std=c++11
++ CXXFLAGS += -std=c++11
+ endif
+ BASEFLAGS += ${ARCH32}
+
+-CFLAGS=-O2 -std=gnu99
++CFLAGS+=-O2 -std=gnu99
+ # zstd appears to be seriously targeted at -O3; see 26 Jul 2016 entry at
+ # cbloom.com/rants.html
+ ifdef ZSTD_O2
+@@ -113,13 +113,13 @@
+ all: plink2 pgen_compress
+
+ plink2: $(CSRC) $(ZCSRC) $(CPPSRC)
+- gcc $(CFLAGS) $(CSRC) -c
+- gcc $(ZCFLAGS) $(ZCSRC) -c
+- g++ $(CXXFLAGS) $(CPPSRC) -c
+- g++ $(OBJ) $(ARCH32) -o plink2 $(BLASFLAGS) $(LINKFLAGS)
++ gcc $(CPPFLAGS) $(CFLAGS) $(CSRC) -c
++ gcc $(CPPFLAGS) $(ZCFLAGS) $(ZCSRC) -c
++ g++ $(CPPFLAGS) $(CXXFLAGS) $(CPPSRC) -c
++ g++ $(OBJ) $(ARCH32) -o plink2 $(BLASFLAGS) $(LINKFLAGS) $(LDFLAGS)
+
+ pgen_compress: ../pgenlib_internal.cpp ../pgen_compress.cpp
+- g++ $(CXXFLAGS) ../pgenlib_internal.cpp ../pgen_compress.cpp -o pgen_compress
++ g++ $(CPPFLAGS) $(CXXFLAGS) $(LDFLAGS) ../pgenlib_internal.cpp ../pgen_compress.cpp -o pgen_compress
+
+ .PHONY: clean
+ clean:
diff --git a/debian/patches/series b/debian/patches/series
new file mode 100644
index 0000000..1c26e5e
--- /dev/null
+++ b/debian/patches/series
@@ -0,0 +1,2 @@
+Fix_Makefile.patch
+Disable_opt.patch
diff --git a/debian/rules b/debian/rules
new file mode 100755
index 0000000..817f0e0
--- /dev/null
+++ b/debian/rules
@@ -0,0 +1,25 @@
+#!/usr/bin/make -f
+
+export DEB_BUILD_MAINT_OPTIONS = hardening=+all
+
+DIRECTORY=build_dynamic/
+
+%:
+ dh $@ --sourcedirectory=$(DIRECTORY)
+
+override_dh_auto_clean:
+ dh_auto_clean
+ rm -f plink2.1
+ rm -f pgen_compress.1
+
+override_dh_auto_build:
+ dh_auto_build
+ help2man --no-discard-stderr --name="whole genome SNP analysis" $(DIRECTORY)/plink2 > plink2.1
+ help2man --no-discard-stderr --name="whole genome SNP analysis" $(DIRECTORY)/pgen_compress > pgen_compress.1
+
+override_dh_installman:
+ dh_installman plink2.1
+ dh_installman pgen_compress.1
+
+override_dh_installchangelogs:
+ dh_installchangelogs debian/upstream.docs/upstream.changelog
diff --git a/debian/source/format b/debian/source/format
new file mode 100644
index 0000000..163aaf8
--- /dev/null
+++ b/debian/source/format
@@ -0,0 +1 @@
+3.0 (quilt)
diff --git a/debian/upstream.docs/toy.map b/debian/upstream.docs/toy.map
new file mode 100644
index 0000000..de30e31
--- /dev/null
+++ b/debian/upstream.docs/toy.map
@@ -0,0 +1,2 @@
+1 rs0 0 1000
+1 rs10 0 1001
diff --git a/debian/upstream.docs/toy.ped b/debian/upstream.docs/toy.ped
new file mode 100644
index 0000000..d73dbd2
--- /dev/null
+++ b/debian/upstream.docs/toy.ped
@@ -0,0 +1,2 @@
+1 1000000000 0 0 1 1 0 0 1 1
+1 1000000001 0 0 1 2 1 1 1 2
diff --git a/debian/upstream.docs/upstream.changelog b/debian/upstream.docs/upstream.changelog
new file mode 100644
index 0000000..539e7ee
--- /dev/null
+++ b/debian/upstream.docs/upstream.changelog
@@ -0,0 +1,45 @@
+# Copy/Paste from https://www.cog-genomics.org/plink/2.0/
+
+17 Jul 2017: BGEN v1.2/1.3 importer memory allocation bugfix. Size of failed allocation is now logged on most out-of-memory errors.
+
+2 Jul: Improved multithreading in BGEN v1.2/1.3 importer. Python writer can now be called with multiple variants at a time.
+
+25 Jun: Basic BGEN v1.2/1.3 import (unphased biallelic dosages; suffices for main UK Biobank data release). --warning-errcode flag added (causes an error code to be returned to the OS on exit when at least one warning is printed).
+
+20 Jun: --condition-list + variant filter bugfix.
+
+5 Jun: --make-pgen memory requirement greatly reduced. End time now printed to console in most situations.
+
+4 Jun: --hwe no longer causes a segfault when chrX is present and no gender information is available. Fixed --dummy bug.
+
+29 May: --import-dosage format=1 bugfix.
+
+26 May: --glm 'standard-beta' modifier replaced with --variance-standardize flag. --quantile-normalize function added. Fixed a missing-sex allele counting bug.
+
+25 May: --hardy/--hwe works properly again when chrX is present but not at the beginning of the dataset.
+
+22 May: Fixed major dosage data + sample-filter bug; we recommend rerunning any operations involving both dosage data and sample filtering performed with earlier plink2 builds. --score 'list-variants' modifier added.
+
+19 May: Fixed a bug with allele frequency computation on dosage data when sample filter(s) are applied.
+
+18 May: Many categorical phenotype-handling flags (--within, --keep-cats, --split-cat-pheno, ...) implemented. Basic phenotype-based filtering implemented (e.g. "--remove-if PHENO1 '>' 2.5"; note that unnamed phenotypes are assigned the names 'PHENO1', 'PHENO2', etc., and that the '<' and '>' characters must be quoted in most shells). --write-covar implemented. --mach-r2-filter implemented, and raw MaCH r2 values can be dumped with "--freq cols=+machr2".
+
+11 May: --condition{-list} + --covar bugfix.
+
+8 May: Fix quantitative phenotype/covariate loading bug introduced in 6 May build.
+
+7 May: --import-dosage implemented.
+
+6 May: Fixed bug which caused '0' to be treated as control instead of missing for binary phenotypes. Minor change to --glm's column headers, in preparation for multiallelic data.
+
+2 May: --score bugfix. --maj-ref bugfix. --vcf-min-dp and '--export A-transpose' implemented.
+
+1 May: VCF dosage import/export, --vcf-min-gq, and --read-freq implemented. --score can now work with standard errors. --autosome{-par} now works properly. SNPHWE2 and SNPHWEX functions relicensed as GPL-2+, to enable inclusion in the HardyWeinberg R package.
+
+20 April: .sample export bugfix (didn't work if file was over 256 KB and no phenotypes were present). --dummy implemented (can now generate dosages).
+
+19 April: --hardy/--hwe chrX bugfix (thanks to Jan Graffelman for catching the problem and validating the fix). --new-id-max-allele-len now has three modes ('error', 'missing', and 'truncate'), and the default mode is now 'error' (i.e. --set-missing-var-ids and --set-all-var-ids now error out when an allele code longer than 23 characters is encountered, instead of silently truncating). --score implemented, and extended to support variance-normalization and multiple score columns (these t [...]
+
+11 April: --pca var-wts bugfix, and --pca eigenvalue ordering bugfix. --glm linear regression and --condition{-list} support added. --geno/--mind/--missing/--genotyping-rate can now refer to missing dosages instead of just missing hardcalls (note that, when importing dosage data, dosages in (0.1, 0.9) and (1.1, 1.9) are saved but there usually won't be associated hardcalls).
+
+20 March 2017: Initial public release.
diff --git a/debian/upstream/metadata b/debian/upstream/metadata
new file mode 100644
index 0000000..fae8f4f
--- /dev/null
+++ b/debian/upstream/metadata
@@ -0,0 +1,13 @@
+Contact: Christopher Chang <chrchang at alumni.caltech.edu>
+Name: plink1.9
+Reference:
+ - Author: Christopher C. Chang and Carson C. Chow and Laurent C.A.M. Tellier and Shashaank Vattikuti and Shaun M. Purcell and James J. Lee
+ Title: "Second-generation PLINK: rising to the challenge of larger and richer datasets"
+ Journal: GigaScience
+ Volume: 4
+ Number: 1
+ Pages: 7
+ Year: 2015
+ URL: http://www.gigasciencejournal.com/content/4/1/7
+ DOI: 10.1186/s13742-015-0047-8
+ eprint: http://www.gigasciencejournal.com/content/pdf/s13742-015-0047-8.pdf
diff --git a/debian/watch b/debian/watch
new file mode 100644
index 0000000..cb25fa5
--- /dev/null
+++ b/debian/watch
@@ -0,0 +1,3 @@
+version=4
+opts="repacksuffix=+dfsg,dversionmangle=s/\+dfsg//g;s/(\d\S*)\-//,repack,compression=xz" \
+ https://www.cog-genomics.org/plink/2.0/ /static/bin/plink2_src_(\d\S+)\.zip
--
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