Bug 214997 - biology/ncbi-blast+: updating to 2.5.0
Summary: biology/ncbi-blast+: updating to 2.5.0
Status: Closed FIXED
Alias: None
Product: Ports & Packages
Classification: Unclassified
Component: Individual Port(s) (show other bugs)
Version: Latest
Hardware: Any Any
: --- Affects Only Me
Assignee: Wen Heping
URL:
Keywords:
Depends on:
Blocks:
 
Reported: 2016-12-02 10:18 UTC by Motomichi Matsuzaki
Modified: 2016-12-22 16:54 UTC (History)
2 users (show)

See Also:

Attachments
svn diff (35.78 KB, patch)
2016-12-02 10:18 UTC, Motomichi Matsuzaki 		no flags Details | Diff
svn diff (corrected for plist problem) (35.99 KB, patch)
2016-12-06 11:51 UTC, Motomichi Matsuzaki 		no flags Details | Diff
Show Obsolete (1) View All Add an attachment (proposed patch, testcase, etc.)

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Description Motomichi Matsuzaki 2016-12-02 10:18:47 UTC 
Created attachment 177596 [details]
svn diff

updating to 2.5.0

Added a patch for src/build-system/Makefile.in.top
Comment 1 Wen Heping freebsd_committer freebsd_triage 2016-12-06 00:49:02 UTC 
build failed with :

===> Checking for items in STAGEDIR missing from pkg-plist
===> Checking for items in pkg-plist which are not in STAGEDIR
Error: Missing: lib/libtrackmgrgridcli-static.a
Error: Missing: lib/libtrackmgrgridcli.a
===> Error: Plist issues found.
*** Error code 1
Comment 2 Motomichi Matsuzaki 2016-12-06 11:51:30 UTC 
Created attachment 177717 [details]
svn diff (corrected for plist problem)
Comment 3 Motomichi Matsuzaki 2016-12-06 11:52:19 UTC 
(In reply to Wen Heping from comment #1)
oops, sorry for that.
Comment 4 commit-hook freebsd_committer freebsd_triage 2016-12-19 03:27:49 UTC 
A commit references this bug:

Author: wen
Date: Mon Dec 19 03:26:54 UTC 2016
New revision: 428903
URL: https://svnweb.freebsd.org/changeset/ports/428903

Log:
  - Update to 2.5.0

  PR:		214997
  Submitted by:	mzaki@e-mail.ne.jp
  Approved by:	maintainer(timeout, > 14 days)

Changes:
  head/biology/ncbi-blast+/Makefile
  head/biology/ncbi-blast+/distinfo
  head/biology/ncbi-blast+/files/patch-src_build-system_Makefile.in.top
  head/biology/ncbi-blast+/files/patch-src_build-system_configure
  head/biology/ncbi-blast+/pkg-plist
Comment 5 Joseph Mingrone freebsd_committer freebsd_triage 2016-12-19 05:01:36 UTC 
After this update, the build failed in an 11.0-RELEASE-p1 poudriere jail.

http://pkg.awarnach.mathstat.dal.ca/data/11amd64-default/2016-12-19_00h22m27s/logs/errors/ncbi-blast+-2.5.0.log
Comment 6 Wen Heping freebsd_committer freebsd_triage 2016-12-20 01:31:52 UTC 
(In reply to Joseph Mingrone from comment #5)
Thank your reporter.
But here I can build it on FreeBSD-10,11,12.
I shall look into it later.

wen
Comment 7 Joseph Mingrone freebsd_committer freebsd_triage 2016-12-20 12:44:27 UTC 
I'll try and dig deeper as well, although it may take a few day before I can get to it.
Comment 8 commit-hook freebsd_committer freebsd_triage 2016-12-22 16:49:32 UTC 
A commit references this bug:

Author: jrm
Date: Thu Dec 22 16:49:17 UTC 2016
New revision: 429170
URL: https://svnweb.freebsd.org/changeset/ports/429170

Log:
  biology/ncbi-blast+: Add MAKE_JOBS_UNSAFE

  PR:		214997
  Approved by:	swills (mentor)
  Differential Revision:	https://reviews.freebsd.org/D8882

Changes:
  head/biology/ncbi-blast+/Makefile