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* sci-biology/trf: What happens in /opt, stays in /optJustin Lecher2013-03-041-7/+6
| | | | (Portage version: 2.2.0_alpha165/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/trf: What happens in /opt, stays in /optJustin Lecher2013-03-043-10/+13
| | | | (Portage version: 2.2.0_alpha165/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/ncbi-tools: Drop oldJustin Lecher2013-03-031-20/+4
| | | | (Portage version: 2.2.0_alpha164/cvs/Linux x86_64, signed Manifest commit with key 8009D6F070EB7916)
* sci-biology/ncbi-tools: Drop oldJustin Lecher2013-03-034-557/+5
| | | | (Portage version: 2.2.0_alpha164/cvs/Linux x86_64, signed Manifest commit with key 8009D6F070EB7916)
* Stable for ppc64, wrt bug #458112Agostino Sarubbo2013-03-031-2/+22
| | | | (Portage version: 2.1.11.52/cvs/Linux ppc64, signed Manifest commit with key 7194459F)
* Stable for ppc64, wrt bug #458112Agostino Sarubbo2013-03-032-3/+6
| | | | (Portage version: 2.1.11.52/cvs/Linux ppc64, signed Manifest commit with key 7194459F)
* Move Qt dependencies to the new categoryMarkos Chandras2013-03-021-15/+17
| | | | (Portage version: 2.1.11.52/cvs/Linux x86_64, signed Manifest commit with key C2BA7F3C!)
* Move Qt dependencies to the new categoryMarkos Chandras2013-03-022-7/+9
| | | | (Portage version: 2.1.11.52/cvs/Linux x86_64, signed Manifest commit with key C2BA7F3C!)
* Move Qt dependencies to the new categoryMarkos Chandras2013-03-021-6/+17
| | | | (Portage version: 2.1.11.52/cvs/Linux x86_64, signed Manifest commit with key C2BA7F3C!)
* Move Qt dependencies to the new categoryMarkos Chandras2013-03-022-6/+8
| | | | (Portage version: 2.1.11.52/cvs/Linux x86_64, signed Manifest commit with key C2BA7F3C!)
* sci-biology/ncbi-tools: Fix typo in sed construct, #459920; add patch to fix ↵Justin Lecher2013-03-021-22/+3
| | | | | | buffer overflows (Portage version: 2.2.0_alpha164/cvs/Linux x86_64, signed Manifest commit with key 8009D6F070EB7916)
* sci-biology/ncbi-tools: Fix typo in sed construct, #459920; add patch to fix ↵Justin Lecher2013-03-023-4/+113
| | | | | | buffer overflows (Portage version: 2.2.0_alpha164/cvs/Linux x86_64, signed Manifest commit with key 8009D6F070EB7916)
* Stable for x86, wrt bug #458112Agostino Sarubbo2013-03-011-15/+15
| | | | (Portage version: 2.1.11.52/cvs/Linux x86_64, signed Manifest commit with key 7194459F)
* Stable for x86, wrt bug #458112Agostino Sarubbo2013-03-012-3/+6
| | | | (Portage version: 2.1.11.52/cvs/Linux x86_64, signed Manifest commit with key 7194459F)
* Stable for amd64, wrt bug #458112Agostino Sarubbo2013-03-011-6/+16
| | | | (Portage version: 2.1.11.52/cvs/Linux x86_64, signed Manifest commit with key 7194459F)
* Stable for amd64, wrt bug #458112Agostino Sarubbo2013-03-012-3/+6
| | | | (Portage version: 2.1.11.52/cvs/Linux x86_64, signed Manifest commit with key 7194459F)
* sci-biology/ncbi-tools: Fix all config files, #459720, #459726, #459878Justin Lecher2013-03-011-5/+5
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/ncbi-tools: Fix all config files, #459720, #459726, #459878Justin Lecher2013-03-012-6/+11
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/meme: Rename all binaries to meme-*; should fix all collisions ↵Justin Lecher2013-03-011-6/+5
| | | | | | in future, #458208; drop old (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, RepoMan options: --force, signed Manifest commit with key 70EB7916)
* sci-biology/meme: Rename all binaries to meme-*; should fix all collisions ↵Justin Lecher2013-03-013-86/+13
| | | | | | in future, #458208; drop old (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, RepoMan options: --force, signed Manifest commit with key 70EB7916)
* sci-biology/ncbi-tools: Clean heuristic to fix build env, #459720 and #459726Justin Lecher2013-03-011-4/+5
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/ncbi-tools: Clean heuristic to fix build env, #459720 and #459726Justin Lecher2013-03-012-1/+159
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/bamtools: Update script and correct dep on jsoncppJustin Lecher2013-03-011-6/+6
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/bamtools: Update script and correct dep on jsoncppJustin Lecher2013-03-013-16/+7
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* Update jsoncpp dependency, bug #452234.Paweł Hajdan2013-02-281-5/+5
| | | | (Portage version: 2.1.11.50/cvs/Linux i686, signed Manifest commit with key 30427902)
* Update jsoncpp dependency, bug #452234.Paweł Hajdan2013-02-282-3/+6
| | | | (Portage version: 2.1.11.50/cvs/Linux i686, signed Manifest commit with key 30427902)
* sci-biology/ncbi-tools++: Drop oldJustin Lecher2013-02-281-6/+5
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/ncbi-tools++: Drop oldJustin Lecher2013-02-283-83/+11
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/rebase: Version BumpJustin Lecher2013-02-281-11/+13
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/rebase: Version BumpJustin Lecher2013-02-283-4/+56
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/vcftools: Use PKG_CONFIG instead of generic pkg-configJustin Lecher2013-02-271-8/+7
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/vcftools: Use PKG_CONFIG instead of generic pkg-configJustin Lecher2013-02-274-13/+17
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/plink: Use detected pkg-config instead of genericJustin Lecher2013-02-271-9/+8
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/plink: Use detected pkg-config instead of genericJustin Lecher2013-02-274-15/+22
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/vaal: Version BUmpJustin Lecher2013-02-201-17/+18
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/vaal: Version BUmpJustin Lecher2013-02-203-7/+55
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/allpathslg: Drop oldJustin Lecher2013-02-201-17/+5
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/allpathslg: Drop oldJustin Lecher2013-02-202-37/+4
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* Stable for amd64, wrt bug #458106Agostino Sarubbo2013-02-201-6/+16
| | | | (Portage version: 2.1.11.52/cvs/Linux x86_64, signed Manifest commit with key 7194459F)
* Stable for amd64, wrt bug #458106Agostino Sarubbo2013-02-202-5/+7
| | | | (Portage version: 2.1.11.52/cvs/Linux x86_64, signed Manifest commit with key 7194459F)
* sci-biology/ncbi-tools: Drop old; rename fmerge.1 to fmerg-ncbi.1 -> ↵Justin Lecher2013-02-181-22/+9
| | | | | | resolves collision with dev-util/fhist, #429560 (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/ncbi-tools: Drop old; rename fmerge.1 to fmerg-ncbi.1 -> ↵Justin Lecher2013-02-187-416/+26
| | | | | | resolves collision with dev-util/fhist, #429560 (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/allpathslg: Drop oldJustin Lecher2013-02-181-17/+5
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/allpathslg: Drop oldJustin Lecher2013-02-183-42/+11
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/raxml: Drop old; stop building when non sse3 capable CPU is ↵Justin Lecher2013-02-181-16/+11
| | | | | | detected, #375061 (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/raxml: Drop old; stop building when non sse3 capable CPU is ↵Justin Lecher2013-02-186-139/+21
| | | | | | detected, #375061 (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/beast-mcmc: Version Bump, fixes missing package, #374277Justin Lecher2013-02-181-5/+17
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/beast-mcmc: Version Bump, fixes missing package, #374277Justin Lecher2013-02-183-7/+99
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/unafold: Fix test, #358053; respect CFLAGSJustin Lecher2013-02-181-4/+15
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)
* sci-biology/unafold: Fix test, #358053; respect CFLAGSJustin Lecher2013-02-184-10/+49
| | | | (Portage version: 2.2.0_alpha163/cvs/Linux x86_64, signed Manifest commit with key 70EB7916)