First Last Prev Next    No search results available      Search page      Enter new bug
Bug#: 13826
Alias:
Product:
Component:
Status: RESOLVED
Resolution: FIXED
Assigned To: Jon Portnoy (RETIRED) <avenj@gentoo.org>
Hardware:
OS:
Version:
Priority:
Severity:
Reporter: Gontran Zepeda <gontran@gontran.net>
Add CC:
CC:
Remove selected CCs
URL:
Summary:
Status Whiteboard:
Keywords:

Filename Description Type Creator Created Size Actions
bioperl-live-1.2.ebuild bioperl-live-1.2.ebuild text/plain Gontran Zepeda 2003-01-13 02:30 0000 1.57 KB Details
bioperl-live-1.2-manpage.diff bioperl-live-1.2-manpage.diff patch Gontran Zepeda 2003-01-13 02:31 0000 716 bytes Details | Diff
Create a New Attachment (proposed patch, testcase, etc.) View All

Bug 13826 depends on: Show dependency tree
Show dependency graph
Bug 13826 blocks:
Votes: 0    Show votes for this bug    Vote for this bug

Additional Comments: (this is where you put emerge --info)







View Bug Activity   |   Format For Printing   |   XML   |   Clone This Bug

Description:   Opened: 2003-01-13 02:29 0000 
New release of bioperl this december.  Also, I've realized that there are a
number of bioperl-* packages that would be nice to have as ebuilds (bioperl-run
for example) and am suggesting a new name for the ebuild.  I hope to submit a
bioperl-run ebuild soon, along with it's corrolarry app-sci/ncbi-tools.  

There's an update to DEPEND and an uncommenting of the perl-module_src_test
function.

Finally, the install process has been cleaned up a bit, and the bioperl manpages
are not created by default -- this some people may want to modify: allowing them
to %man Bio::SomeModule instead of %perldoc Bio::SomeModule.  If they desire
that behaviour (and to waste diskspace :), they may uncomment the src_unpack
function which contains a makefile patch as discussed on the bioperl-l list.


Yours,
Gontran

------- Comment #1 From Gontran Zepeda 2003-01-13 02:30:09 0000 ------- 
Created an attachment (id=7251) [edit]
bioperl-live-1.2.ebuild

------- Comment #2 From Gontran Zepeda 2003-01-13 02:31:43 0000 ------- 
Created an attachment (id=7252) [edit]
bioperl-live-1.2-manpage.diff

------- Comment #3 From Jon Portnoy (RETIRED) 2003-04-24 10:17:05 0000 ------- 
Mind if I take this one, mcummings? sediener is planning to submit ebuilds that
depend on it.

------- Comment #4 From Jon Portnoy (RETIRED) 2003-04-24 15:54:28 0000 ------- 
Unfortunately, portage doesn't currently have acceptable package move
abilities, so I'm going to have to keep the name 'bioperl' for the central
package for now, at least until move capability is improved.

perl-module_src_test fails for me - two tests from t/RootIO.t fail. Can you
reproduce that? It merges fine without perl-module_src_test.

------- Comment #5 From Stephen Diener (RETIRED) 2003-04-25 19:14:22 0000 ------- 
Same thing here  RootIO test 14 and 18 failed... I think that this is standard
behavior for Bioperl.

------- Comment #6 From Jon Portnoy (RETIRED) 2003-04-25 19:18:17 0000 ------- 
Okay, I'm going to comment out the test part.

------- Comment #7 From Jon Portnoy (RETIRED) 2003-04-25 19:28:33 0000 ------- 
Committed. Sorry for the very long wait on it.

------- Comment #8 From Jon Portnoy (RETIRED) 2003-04-25 19:29:07 0000 ------- 
Erm... forgot to change the resolution.

------- Comment #9 From Stephen Diener (RETIRED) 2003-04-25 19:39:21 0000 ------- 
Something else odd:

even though I have DBD::mysql and GD emerged, bioperl says that they are not installed (at the beginning of the ebuild)

When  I re-emerged GD, DBI and DBD-mysql it worked properly.

I think that we may need the r3 ebuild of DBD-mysql
First Last Prev Next    No search results available      Search page      Enter new bug