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* biology/subread: Add -fcommon for clang 11Jason W. Bacon2020-09-181-0/+1
* biology/canu: Upgrade to 2.1Jason W. Bacon2020-09-144-40/+24
* biology/py-pyfaidx: Update 0.5.5.2 -> 0.5.9.1Yuri Victorovich2020-09-132-5/+4
* biology/gatk: Fix buildYuri Victorovich2020-09-081-3/+3
* biology/viennarna: Update 2.4.14 -> 2.4.15Yuri Victorovich2020-09-072-5/+4
* biology/gatk: Update 4.1.8.0 -> 4.1.8.1Yuri Victorovich2020-09-062-6/+6
* biology/mapm3: Reformat patches.Fernando Apesteguía2020-09-0423-125/+128
* biology/mapm3: Fix build with llvm11, gcc10Fernando Apesteguía2020-09-041-4/+14
* biology/hyphy: Update to version 2.5.18 and add AVX optionJoseph Mingrone2020-09-023-6/+29
* biology/py-ete3: Update 3.1.1 -> 3.1.2Yuri Victorovich2020-09-022-4/+4
* biology/diamond: Update to version 2.0.4Joseph Mingrone2020-08-303-49/+4
* biology/picard-tools: Remove extraneous fileJason W. Bacon2020-08-301-112/+0
* Extend expiration of ports broken with -fno-commonNiclas Zeising2020-08-303-7/+9
* Chase security/p11-kit updateRoman Bogorodskiy2020-08-302-2/+2
* biology/: Fix build with clang11 and deprecate ports@ portsTobias C. Berner2020-08-293-0/+15
* biology/phyml: fix build on recent currentTobias C. Berner2020-08-294-0/+74
* biology/cufflinks: fix build on recent currentTobias C. Berner2020-08-281-0/+11
* biology/bwa: fix build on recent currentTobias C. Berner2020-08-282-1/+6
* Remove expired ports:Rene Ladan2020-08-276-129/+0
* biology/hhsuite: Update 3.2.0 -> 3.3.0Yuri Victorovich2020-08-274-46/+4
* biology/paml: fix the build with LLVM 11Kyle Evans2020-08-201-0/+14
* biology/hyphy: Update to version 2.5.17Joseph Mingrone2020-08-202-4/+4
* devel/ipython: Update to 7.17.0Danilo G. Baio2020-08-151-1/+1
* Remove deprecated ports:Rene Ladan2020-08-154-65/+0
* biology/graphlan: Remove the 2.7 limitation on python because it's no longer ...Yuri Victorovich2020-08-141-4/+2
* biology/groopm: Remove python's 2.7 restriction placed here by mistakeYuri Victorovich2020-08-131-5/+2
* biology/diamond: Update to version 2.0.2Joseph Mingrone2020-08-073-4/+49
* biology/py-gtfparse: Update 1.2.0 -> 1.2.1Yuri Victorovich2020-08-072-5/+4
* biology/samtools: Upgrade to 1.10Jason W. Bacon2020-08-035-22/+68
* biology/bcftools: Upgrade to 1.10.2Jason W. Bacon2020-08-036-78/+69
* biology/vt: Patch to work with htslib 1.10.2Jason W. Bacon2020-08-035-1/+62
* biology/htslib: Upgrade to 1.10.2Jason W. Bacon2020-08-0312-43/+113
* biology/kallisto: Revert to 0.46.1Jason W. Bacon2020-08-035-60/+32
* biology/diamond: Update to version 2.0.0Joseph Mingrone2020-07-283-14/+4
* Deprecate ports broken for more than 6 monthsAntoine Brodin2020-07-261-0/+2
* Update to 2.0.1Sunpoet Po-Chuan Hsieh2020-07-242-10/+4
* Add rubygem-bio-shell 1.0.0Sunpoet Po-Chuan Hsieh2020-07-244-0/+38
* Add rubygem-bio-old-biofetch-emulator 1.0.0Sunpoet Po-Chuan Hsieh2020-07-244-0/+33
* Add rubygem-bio-executables 1.0.0Sunpoet Po-Chuan Hsieh2020-07-244-0/+43
* Update devel/tbb to 2020.3 and bump dependent ports' revisionsGanael LAPLANCHE2020-07-171-1/+1
* Unbreak bulk -aAntoine Brodin2020-07-141-1/+1
* biology/phyml: update to 3.3.20200621Fernando Apesteguía2020-07-102-6/+5
* biology/gatk: Update 4.1.7.0 -> 4.1.8.0Yuri Victorovich2020-07-092-6/+6
* biology/cufflinks: fix build on GCC architecturesPiotr Kubaj2020-07-081-1/+1
* Chanse update of devel/libffiNiclas Zeising2020-07-041-0/+1
* biology/psi88: Unbreak build with GCC 10Tobias Kortkamp2020-07-041-0/+1
* biology/bowtie: Unbreak build with GCC 10Tobias Kortkamp2020-07-041-0/+11
* biology/diamond: Update to version 0.9.36Joseph Mingrone2020-07-033-4/+14
* Bump devel/jsoncpp consumers after r540853.Tobias C. Berner2020-06-301-1/+1
* biology/hyphy: Update to version 2.5.15Joseph Mingrone2020-06-282-4/+4
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