Some tasks for people loving Ensembl package
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Hi,
I just commited a very simple typo in an upstream script which should be
reported (otherwise the script might stay broken). Is there any
volunteer to report this upstream? For the patch either see below[2] or
point upstream to the location in SVN[1].
Further there is another problem which needs clarification from upstream.
The script
ensembl-variation/scripts/import/run.me
is executable and most possibly a shell script but lacking a proper
shebang line. I admit it is a bit suspicious because it calls to
programs which most probably do not exist:
1. bsub (there are some scripts starting with bsub* but not exactly
this string)
2. /usr/local/ensembl/bin/perl --> this should definitely replaced
by simply calling perl
Is there any volunteer who would take over the job of contacting
upstream (possibly on behalf of the Debian Med team if this sounds more
convincing) to submit the patch and clarify the issue of the run.me
script?
Kind regards
Andreas.
[1] http://anonscm.debian.org/viewvc/debian-med/trunk/packages/ensembl/ensembl/trunk/debian/patches/fix_usr_bin_env_typo.patch?view=markup
[2] extract from commit mail:
----- Forwarded message from Andreas Tille <tille@alioth.debian.org> -----
Date: Wed, 7 Dec 2011 21:06:23 +0000
From: Andreas Tille <tille@alioth.debian.org>
To: debian-med-commit@lists.alioth.debian.org
Subject: r8823 - in trunk/packages/ensembl/ensembl/trunk/debian: .
patches
Author: tille
Date: 2011-12-07 21:06:23 +0000 (Wed, 07 Dec 2011)
New Revision: 8823
...
Added: trunk/packages/ensembl/ensembl/trunk/debian/patches/fix_usr_bin_env_typo.patch
===================================================================
--- trunk/packages/ensembl/ensembl/trunk/debian/patches/fix_usr_bin_env_typo.patch (rev 0)
+++ trunk/packages/ensembl/ensembl/trunk/debian/patches/fix_usr_bin_env_typo.patch 2011-12-07 21:06:23 UTC (rev 8823)
@@ -0,0 +1,8 @@
+--- ensembl-65.orig/ensembl-variation/scripts/misc/generate_reg_file.pl
++++ ensembl-65/ensembl-variation/scripts/misc/generate_reg_file.pl
+@@ -1,4 +1,4 @@
+-#!/use/bin/env perl
++#!/usr/bin/env perl
+
+ use strict;
+ use warnings;
_______________________________________________
----- End forwarded message -----
--
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