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a6df26b805b5d61e7002'>biology/pooler: Optimise DNA sequencing primer-set combinationsJason W. Bacon2020-11-164-0/+52 * biology/viennarna: Update 2.4.15 -> 2.4.16Yuri Victorovich2020-11-123-4/+5 * biology/py-xenaPython: Update 1.0.10 -> 1.0.14Yuri Victorovich2020-11-112-4/+4 * biology/vt: Fix build with htslib 1.11Jason W. Bacon2020-11-092-2/+13 * biology/gcta: Switch eigen3 dep to USES frameworkJason W. Bacon2020-11-081-2/+1 * biology/bowtie2: Upgrade to 2.4.2Jason W. Bacon2020-11-073-12/+20 * biology/bcftools: Upgrade to 1.11Jason W. Bacon2020-11-066-71/+18 * biology/samtools: Upgrade to 1.11Jason W. Bacon2020-11-065-67/+38 * biology/htslib: Upgrade to 1.11.0Jason W. Bacon2020-11-067-103/+51 * biology/hyphy: Update to version 2.5.21Joseph Mingrone2020-10-304-16/+5 * biology/mummer: fix build on powerpc64 elfv2 and powerpc64lePiotr Kubaj2020-10-262-1/+12 * biology/mothur: fix build on powerpc64lePiotr Kubaj2020-10-191-0/+19 * biology/hyphy: Update to version 2.5.20Joseph Mingrone2020-10-173-4/+15 * biology/py-biopython: Upgrade to 1.78Jason W. Bacon2020-10-172-4/+4 * biology/hyphy: Update to version 2.5.19Joseph Mingrone2020-10-133-24/+4 * biology/gmap: enable on powerpc64lePiotr Kubaj2020-10-091-1/+1 * Update PyQt to 5.15.0, py-sip to 4.19.24 and qscintilla2 to 2.11.5Loïc Bartoletti2020-10-051-0/+1 * Convert REINPLACE_CMD to patch fileSunpoet Po-Chuan Hsieh2020-09-302-1/+22 * Update PYTHON option to use Python 3Sunpoet Po-Chuan Hsieh2020-09-281-5/+2 * Allow building on powerpc64le.Mark Linimon2020-09-271-1/+1 * Canonicalize powerpc64le CXXFLAGS to be the same as powerpc64.Mark Linimon2020-09-271-0/+1 * biology/abyss: Update 2.2.4 -> 2.2.5Yuri Victorovich2020-09-273-6/+5 * biology/ncbi-cxx-toolkit: Fix build on 13Yuri Victorovich2020-09-271-0/+10 * biology/py-biom-format: Fix fetch and relax scipy requirementJoseph Mingrone2020-09-262-4/+5 * biology/ncbi-cxx-toolkit: Update 21.0.0 -> 22.0.0Yuri Victorovich2020-09-253-10/+17 * biology/py-biom-format: Update to version 2.1.8Joseph Mingrone2020-09-252-15/+7 * biology/py-scikit-bio: Fix build on the i386 architectureYuri Victorovich2020-09-251-1/+8 * Also enable on powerpc64le.Mark Linimon2020-09-251-1/+1 * Also enable on powerpc64le.Mark Linimon2020-09-251-1/+1 * biology/py-biom-format: Restore in preparation for an update to v2.1.8Joseph Mingrone2020-09-254-0/+65 * biology/gmap: Upgrade to 2020.09.12Jason W. Bacon2020-09-223-27/+17 * Fix build with -fno-commonStefan Eßer2020-09-223-1/+23 * Unbreak bulk -aAntoine Brodin2020-09-191-1/+1 * Remove expired ports:Rene Ladan2020-09-1922-506/+0 * biology/subread: Add -fcommon for clang 11Jason W. Bacon2020-09-181-0/+1 * biology/canu: Upgrade to 2.1Jason W. Bacon2020-09-154-40/+24 * biology/py-pyfaidx: Update 0.5.5.2 -> 0.5.9.1Yuri Victorovich2020-09-142-5/+4 * biology/gatk: Fix buildYuri Victorovich2020-09-091-3/+3 * biology/viennarna: Update 2.4.14 -> 2.4.15Yuri Victorovich2020-09-082-5/+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 Mingrone2020-09-033-6/+29 * biology/py-ete3: Update 3.1.1 -> 3.1.2Yuri Victorovich2020-09-022-4/+4 * biology/diamond: Update to version 2.0.4Joseph Mingrone2020-08-313-49/+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. Berner2020-08-291-0/+11 * biology/bwa: fix build on recent currentTobias C. Berner2020-08-28