[med-svn] [trinityrnaseq] branch master updated (c84735e -> 837603d)

[Michael Crusoe]

This is an automated email from the git hooks/post-receive script.

misterc-guest pushed a change to branch master
in repository trinityrnaseq.

from c84735e include postinstall tests
new fad78d9 cme fix
new 837603d update deps; thank you pbuilder

The 2 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails. The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
debian/control | 6 +++---
debian/patches/jellyfish-path | 1 +
debian/patches/noExitTester | 1 +
3 files changed, 5 insertions(+), 3 deletions(-)

[Michael Crusoe]

This is an automated email from the git hooks/post-receive script.

misterc-guest pushed a commit to branch master
in repository trinityrnaseq.

commit fad78d9f282a7a47154d0eedf3a20bc975f3272f
Author: Michael R. Crusoe <***@msu.edu>
Date: Mon Feb 2 12:51:24 2015 -0500

cme fix
---
debian/control | 6 +++---
debian/patches/jellyfish-path | 1 +
debian/patches/noExitTester | 1 +
3 files changed, 5 insertions(+), 3 deletions(-)

diff --git a/debian/control b/debian/control
index 8a51e66..4ad9e19 100644
--- a/debian/control
+++ b/debian/control
@@ -3,15 +3,15 @@ Section: science
Priority: optional
Maintainer: Debian Med Packaging Team <debian-med-***@lists.alioth.debian.org>
Uploaders: Michael R. Crusoe
-Build-Depends: debhelper (>= 9), autotools-dev, jellyfish (>= 2.1.4), libcollections15-java, javahelper, libgetopt-java
+Build-Depends: debhelper (>= 9), autotools-dev, jellyfish (>= 2.1.4), libcollections15-java, javahelper, libgetopt-java, default-jdk
Standards-Version: 3.9.5
Vcs-Browser: http://anonscm.debian.org/gitweb/?p=debian-med/trinityrnaseq.git
-Vcs-Svn: git://anonscm.debian.org/debian-med/trinityrnaseq.git
+Vcs-Git: git://anonscm.debian.org/debian-med/trinityrnaseq.git
Homepage: http://trinityrnaseq.github.io/

Package: trinityrnaseq
Architecture: any
-Depends: ${shlibs:Depends}, ${misc:Depends}, bowtie
+Depends: ${shlibs:Depends}, ${misc:Depends}, bowtie, python
Description: RNA-Seq De novo Assembly
Trinity represents a novel method for the efficient and robust de novo
reconstruction of transcriptomes from RNA-seq data. Trinity combines three
diff --git a/debian/patches/jellyfish-path b/debian/patches/jellyfish-path
index 3afec56..1ac92ef 100644
--- a/debian/patches/jellyfish-path
+++ b/debian/patches/jellyfish-path
@@ -1,3 +1,4 @@
+Description:Jellyfish path
--- trinityrnaseq.orig/Trinity
+++ trinityrnaseq/Trinity
@@ -481,7 +481,7 @@
diff --git a/debian/patches/noExitTester b/debian/patches/noExitTester
index 9fb209d..6525074 100644
--- a/debian/patches/noExitTester
+++ b/debian/patches/noExitTester
@@ -1,3 +1,4 @@
+Description:NoExitTester
--- trinityrnaseq.orig/Trinity
+++ trinityrnaseq/Trinity
@@ -2072,32 +2072,6 @@

[Michael Crusoe]

This is an automated email from the git hooks/post-receive script.

misterc-guest pushed a commit to branch master
in repository trinityrnaseq.

commit 837603dd31318242e2fa53bb18149c2fb3ed4a68
Author: Michael R. Crusoe <***@msu.edu>
Date: Mon Feb 2 14:35:02 2015 -0500

update deps; thank you pbuilder
---
debian/control | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/debian/control b/debian/control
index 4ad9e19..e25f099 100644
--- a/debian/control
+++ b/debian/control
@@ -11,7 +11,7 @@ Homepage: http://trinityrnaseq.github.io/

Package: trinityrnaseq
Architecture: any
-Depends: ${shlibs:Depends}, ${misc:Depends}, bowtie, python
+Depends: ${shlibs:Depends}, ${misc:Depends}, bowtie, python, libwww-perl, default-jre-headless, samtools, jellyfish
Description: RNA-Seq De novo Assembly
Trinity represents a novel method for the efficient and robust de novo
reconstruction of transcriptomes from RNA-seq data. Trinity combines three