[med-svn] [Git][med-team/subread][master] 3 commits: Don't install buggy detectionCall binary

[Alexandre Mestiashvili]

Alexandre Mestiashvili pushed to branch master at Debian Med / subread


Commits:
17088b4b by Alexandre Mestiashvili at 2019-01-30T18:54:39Z
Don't install buggy detectionCall binary

- - - - -
d7f4e6bf by Alexandre Mestiashvili at 2019-01-30T19:03:54Z
Update d/README.Debian

- - - - -
0c38a9c5 by Alexandre Mestiashvili at 2019-01-30T19:21:36Z
Update d/chaneglog

Gbp-Dch: Ignore

- - - - -


4 changed files:

- debian/README.Debian
- debian/changelog
- debian/rules
- debian/subread.install


Changes:

=====================================
debian/README.Debian
=====================================
@@ -12,4 +12,9 @@ Subread User Guide can be found on the project's web site:
 
   http://bioinf.wehi.edu.au/subread-package/SubreadUsersGuide.pdf
 
--- Alex Mestiashvili <alex at biotec.tu-dresden.de>  Thu, 07 May 2015 15:24:57 +0200
+Subread 1.6.3 changes:
+ detectionCall binary is excluded from 1.6.3+dfsg-1 package due to it's
+ bugginess. The issue is submited to the upstream and hopefully will
+ be resolved in the next releases.
+
+-- Alex Mestiashvili <mestia at debian.org>  Thu, 07 May 2015 15:24:57 +0200


=====================================
debian/changelog
=====================================
@@ -1,18 +1,17 @@
-subread (1.6.3+dfsg-1) UNRELEASED; urgency=medium
+subread (1.6.3+dfsg-1) unstable; urgency=medium
 
   [ Alexandre Mestiashvili ]
   * New upstream version 1.6.3+dfsg
   * DH_VERBOSE=1, check for nocheck in DEB_BUILD_OPTIONS
   * Bump Policy to 4.3.0
   * Refresh patches
-  * New binary detectionCall segfaults,
-    remove dropped by upstream coverageCount
-  * TODO: waiting for answer from upstream regarding segfault on derectionCall
+  * Don't install buggy detectionCall binary
+  * Update d/README.Debian
 
   [ Andreas Tille ]
   * debhelper 12
 
- -- Alexandre Mestiashvili <mestia at debian.org>  Thu, 11 Oct 2018 12:33:55 +0000
+ -- Alexandre Mestiashvili <mestia at debian.org>  Wed, 30 Jan 2019 20:19:47 +0100
 
 subread (1.6.2+dfsg-1) unstable; urgency=medium
 


=====================================
debian/rules
=====================================
@@ -72,8 +72,8 @@ DNA-seq reads and RNA-seq reads (for the purpose of expression analysis)' \
 #	$(HELP2MAN) --name='counting the coverage of mapped reads at each location on the entire reference genome' \
 #	$(utildir)/coverageCount | debian/filter.pl > $(mandir)/coverageCount.1;
 
-	$(HELP2MAN) --name='detectionCall' \
-	$(utildir)/detectionCall | debian/filter.pl > $(mandir)/detectionCall.1;
+#	$(HELP2MAN) --name='detectionCall' \
+#	$(utildir)/detectionCall | debian/filter.pl > $(mandir)/detectionCall.1;
 
 	$(HELP2MAN) --name='calculate the proportion of mapped reads/fragments' \
 	$(utildir)/propmapped | debian/filter.pl > $(mandir)/propmapped.1;


=====================================
debian/subread.install
=====================================
@@ -5,7 +5,6 @@ bin/subjunc                     usr/bin
 bin/sublong                     usr/bin
 bin/subread-align               usr/bin
 bin/subread-buildindex          usr/bin
-bin/utilities/detectionCall     usr/lib/subread
 bin/utilities/propmapped        usr/lib/subread
 bin/utilities/qualityScores     usr/lib/subread
 bin/utilities/removeDup         usr/lib/subread



View it on GitLab: https://salsa.debian.org/med-team/subread/compare/21f35b1322a16a3a7753450c8cf3a1979b41caf9...0c38a9c56ad2af07803b2fb1e02162ffd84471e2

-- 
View it on GitLab: https://salsa.debian.org/med-team/subread/compare/21f35b1322a16a3a7753450c8cf3a1979b41caf9...0c38a9c56ad2af07803b2fb1e02162ffd84471e2
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