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Bug#: 38853
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Status: RESOLVED
Resolution: FIXED
Assigned To: Gentoo Science Related Packages <sci@gentoo.org>
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Reporter: Pablo Nehab-Hess <natunobilis@gentoobr.org>
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Filename Description Type Creator Created Size Actions
phylip-3.6_beta.ebuild ebuild for v 3.6_beta of Phylip text/plain Pablo Nehab-Hess 2004-01-20 15:35 0000 1.59 KB Details
digest-phylip-3.6_beta digest for v 3.6_beta of Phylip text/plain Pablo Nehab-Hess 2004-01-20 15:36 0000 58 bytes Details
phylip-3.5-r1.ebuild phylip-3.5-r1.ebuild - SLOTable ebuild text/plain Olivier Fisette 2004-05-31 18:55 0000 1021 bytes Details
phylip-3.6_beta1.ebuild phylip-3.6_beta1.ebuild - SLOTable ebuild text/plain Olivier Fisette 2004-05-31 18:56 0000 1.01 KB Details
phylip-3.6_beta1.ebuild phylip-3.6_beta1.ebuild - Corrected SLOTable ebuild text/plain Olivier Fisette 2004-06-01 05:13 0000 1.02 KB Details
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Bug 38853 depends on: Show dependency tree
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Description:   Opened: 2004-01-20 15:32 0000 
Phylip (PHYlogeny Inference Package) is a program package inferring
phylogenies, written by Joseph Felsenstein at the University of Washington.

Reproducible: Always
Steps to Reproduce:
1.
2.
3.

------- Comment #1 From Pablo Nehab-Hess 2004-01-20 15:35:19 0000 ------- 
Created an attachment (id=24147) [details]
ebuild for v 3.6_beta of Phylip

------- Comment #2 From Pablo Nehab-Hess 2004-01-20 15:36:24 0000 ------- 
Created an attachment (id=24148) [details]
digest for v 3.6_beta of Phylip

------- Comment #3 From Pablo Nehab-Hess 2004-01-21 14:28:15 0000 ------- 
Apparently, I forgot to mention that although this is a beta version, the
program's author (all-mighty Joe Felsenstein) strongly encourages its use. Even
the alpha version was very reliable.

------- Comment #4 From Olivier Fisette 2004-05-31 18:49:24 0000 ------- 
I think many scientists would not want to use this beta version for producing
results for publication. To make sure those who want can play with the beta
while, at the same time, keeping the old version, we could make this package
SLOTable. 

Here are two ebuilds for versions 3.5 and 3.6_beta1 that use the SLOT feature.
Programs are installed in: /usr/phylip/3.x/bin. The relevant directory is added
to PATH through the env file 24phylip. If both packages are installed, 24phylip
adds the last installed version to PATH. Every user can override this by adding
"export PATH=/usr/phylip/3.x/bin:$PATH" to his .bashrc.

------- Comment #5 From Olivier Fisette 2004-05-31 18:55:13 0000 ------- 
Created an attachment (id=32425) [details]
phylip-3.5-r1.ebuild - SLOTable ebuild

------- Comment #6 From Olivier Fisette 2004-05-31 18:56:32 0000 ------- 
Created an attachment (id=32426) [details]
phylip-3.6_beta1.ebuild - SLOTable ebuild

------- Comment #7 From Olivier Fisette 2004-06-01 05:13:56 0000 ------- 
Created an attachment (id=32441) [details]
phylip-3.6_beta1.ebuild - Corrected SLOTable ebuild

There was a bug in my first 2.6 beta ebuild (I used PV instead of SLOT for
determining DESTDIR, and PV includes the _beta1 part of the version). This
corrected ebuild fixes that.

------- Comment #8 From Olivier Fisette 2004-07-19 17:46:13 0000 ------- 
Commited the new stable 3.6 version.
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