Your message dated Sat, 01 Jul 2017 09:34:54 +0000
with message-id <[email protected]>
and subject line Bug#866330: fixed in cd-hit 4.6.8-1
has caused the Debian Bug report #866330,
regarding cd-hit: please make the build reproducible
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact [email protected]
immediately.)
--
866330: http://bugs.debian.org/cgi-bin/bugreport.cgi?bug=866330
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: cd-hit
Version: 4.6.7-1
Severity: wishlist
Tags: patch
User: [email protected]
Usertags: buildpath
X-Debbugs-Cc: [email protected]
Hi,
Whilst working on the Reproducible Builds effort [0], we noticed
that cd-hit could not be built reproducibly.
This is because the help2man call to cd-hit-div fails as it does not
support --help argument, and the error message contains the absolute
build path.
Patch attached. It adds a very basic "usage" stanza, thus fixing both
issues at once.
[0] https://reproducible-builds.org/
Regards,
--
,''`.
: :' : Chris Lamb, Debian Project Leader
`. `'` [email protected] / chris-lamb.co.uk
`-
--- a/debian/patches/enable_help2man.patch 2017-06-28 22:02:55.736716965
+0100
--- b/debian/patches/enable_help2man.patch 2017-06-28 22:18:48.946156579
+0100
+--- cd-hit-4.6.7.orig/cd-hit-div.pl
++++ cd-hit-4.6.7/cd-hit-div.pl
+@@ -4,6 +4,11 @@
+ #or throw away seq
+
+ $in = shift; $in or die "no input file";
++if ($in eq "--help") {
++ print "Usage: $0 IN OUT DIV\n\n";
++ print "Divide a FASTA file into pieces.\n";
++ exit;
++}
+ $out = shift; $out or die "no output file";
+ $div = shift; $div or die "no div number";
+
--- End Message ---
--- Begin Message ---
Source: cd-hit
Source-Version: 4.6.8-1
We believe that the bug you reported is fixed in the latest version of
cd-hit, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Sascha Steinbiss <[email protected]> (supplier of updated cd-hit package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Sat, 01 Jul 2017 10:43:07 +0200
Source: cd-hit
Binary: cd-hit
Architecture: source amd64
Version: 4.6.8-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Sascha Steinbiss <[email protected]>
Description:
cd-hit - suite of programs designed to quickly group sequences
Closes: 866330
Changes:
cd-hit (4.6.8-1) unstable; urgency=medium
.
* Team upload.
* New upstream release.
* Make build reproducible, thanks to Chris Lamb for the patch.
Closes: #866330
Checksums-Sha1:
3f197af693e66df1ab33027d03ea792fd6806a59 1623 cd-hit_4.6.8-1.dsc
2461b9e00069e2317394c7eae32ac5523777d975 932535 cd-hit_4.6.8.orig.tar.gz
a2662fa3797d6474f1f7945f8f86798cad211cd7 7476 cd-hit_4.6.8-1.debian.tar.xz
0565c896c6c37d72bcc0e9c9b17578b81955b0e3 1849964
cd-hit-dbgsym_4.6.8-1_amd64.deb
691286bd3c8a91418849e4b3fe9f55c87b655445 5317 cd-hit_4.6.8-1_amd64.buildinfo
e5958479489c4d581ea8da71c4e40906081d6417 516992 cd-hit_4.6.8-1_amd64.deb
Checksums-Sha256:
3aa3bc152c40e0652369c1b379928d70663265ef8daf9620462575bead52cdc1 1623
cd-hit_4.6.8-1.dsc
37d685e4aa849314401805fe4d4db707e1d06070368475e313d6f3cb8fb65949 932535
cd-hit_4.6.8.orig.tar.gz
76a8a8be0046894bee1c01e1dc5f1be3c7f368d2722c80c468aff00b81f9ae7a 7476
cd-hit_4.6.8-1.debian.tar.xz
0d0f36950223f97b3ea9bafb66cfada8195a8b497b9e8155e47a3adbccc7801d 1849964
cd-hit-dbgsym_4.6.8-1_amd64.deb
6fb0598fb43629e4b33973441422c7f9368aba7e58cbc570504f9c05b719fc6a 5317
cd-hit_4.6.8-1_amd64.buildinfo
892a613d73b26e08d11993d77f922b574ede278486220a0b150dc21627da0892 516992
cd-hit_4.6.8-1_amd64.deb
Files:
049964470839e47896929eee296a61c7 1623 science optional cd-hit_4.6.8-1.dsc
bdd73ec0cceab6653aab7b31b57c5a8b 932535 science optional
cd-hit_4.6.8.orig.tar.gz
5cf8896c9f25b4839ef355e5a2ff5757 7476 science optional
cd-hit_4.6.8-1.debian.tar.xz
bf9094ea7ca6f99f363b0273d6034e3d 1849964 debug extra
cd-hit-dbgsym_4.6.8-1_amd64.deb
7f3e835cdde39b01985f8964678c2a22 5317 science optional
cd-hit_4.6.8-1_amd64.buildinfo
76751e5e48710f8383f3b5dc32e05bf3 516992 science optional
cd-hit_4.6.8-1_amd64.deb
-----BEGIN PGP SIGNATURE-----
iQEzBAEBCAAdFiEEhFH5F4Fy5+Lcc/eVUfhKj+zKfgkFAllXZpkACgkQUfhKj+zK
fgkjYwf/ekM6fcUXS63zIk19p3S9nML/AqEGJ77KaQVhlfBc3a2BAxFq/DqtnDnd
Im99nIP/lQUmVn06O8b073kmb8XdipCqb01WqzJJ8Co0UkgXSxNQW/vUUAmqAEaY
fKshC72+UIpFxN+gcfdxYpWpDBB4IFcEwtPwKSigS2vhg4rdhy5iT8K7mMYSqQNU
xdKMgAvB7v5C67Pqs9afZlv71PS4M/bYi/d1S5XgVbsiWC762ejRAIkO2caguump
gYZhc960TkAKgWaIKU7XesR+QRv844vhmBfOLfhYjwuQ/FmdSli1dd0YlC82hZwn
jW9Bnk9GqA2TEl+G68Ih0zy3we4OGg==
=itFB
-----END PGP SIGNATURE-----
--- End Message ---
