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* Clean up after java/openjdk6 and java/openjdk6-jre removalJung-uk Kim2019-11-265-6/+2
* biology/py-multiqc: Upgrade to 1.8Jason W. Bacon2019-11-264-51/+9
* biology/p5-TrimGalore: Upgrade to 0.6.5Jason W. Bacon2019-11-262-4/+4
* biology/unanimity and dependencies: Flag as no longer open sourceJason W. Bacon2019-11-244-4/+12
* biology/py-cutadapt: Upgrade to 2.7Jason W. Bacon2019-11-232-8/+7
* biology/py-dnaio: Upgrade to 0.4.1Jason W. Bacon2019-11-232-4/+6
* biology/py-bx-python: Update 0.8.4 -> 0.8.6Yuri Victorovich2019-11-232-5/+4
* biology/paml: Update to version 4.9jJoseph Mingrone2019-11-222-6/+4
* biology/diamond: Update to v0.9.29Joseph Mingrone2019-11-202-4/+4
* Create devel/gradle5 in preparation of devel/gradle updateTobias Kortkamp2019-11-201-2/+2
* biology/haplohseq: Switch to distfile with example dataJason W. Bacon2019-11-178-9/+131
* biology/canu: Upgrade to 1.9Jason W. Bacon2019-11-084-127/+12
* - Limit python version (does not build with 3.7+)Dmitry Marakasov2019-11-081-1/+1
* a-b: Add missing USES={gnome,php,sdl,xorg}Tobias Kortkamp2019-11-082-2/+2
* Sprinkle more USES=xorgNiclas Zeising2019-11-071-1/+1
* biology/diamond: Update to version 0.9.28Joseph Mingrone2019-11-073-13/+4
* Mark a few ports BROKEN, unfetchableAntoine Brodin2019-11-068-0/+16
* biology/kallisto: Upgrade to 0.46.1Jason W. Bacon2019-11-062-5/+4
* Add USES=xorg USES=gl, ports categories bNiclas Zeising2019-11-049-9/+10
* biology/diamond: Update to version 0.9.27 (plus one fix)Joseph Mingrone2019-11-032-7/+5
* math/gsl: update to 2.6Tobias C. Berner2019-10-253-2/+5
* biology/avida: unbreak on powerpc64Piotr Kubaj2019-10-231-2/+1
* Remove expired ports:Rene Ladan2019-10-169-131/+0
* biology/prodigal: Eliminate a very old version from the portscout discovery p...Yuri Victorovich2019-10-121-0/+2
* biology/prodigal: Update 2.6.3-2 -> 2.6.3-7Yuri Victorovich2019-10-122-5/+8
* biology/star: Upgrade to 2.7.2dJason W. Bacon2019-10-062-6/+5
* biology/fastahack: Upgrade to 1.0.0Jason W. Bacon2019-10-062-7/+7
* biology/mothur: Update 1.42.3 -> 1.43.0Yuri Victorovich2019-10-052-6/+5
* biologi/ncbi-toolkit: Remove dependency on libXpNiclas Zeising2019-09-281-5/+4
* Deprecate x11/libXp, it is deprecated upstreamNiclas Zeising2019-09-271-1/+3
* biology/tophat: Fast splice junction mapper for RNA-Seq readsJason W. Bacon2019-09-279-0/+192
* Update devel/tbb to 2019.8 and bump dependent ports' revisionsGanael LAPLANCHE2019-09-251-0/+1
* biology/py-multiqc: Aggregate bioinformatics analysis reportsJason W. Bacon2019-09-236-0/+118
* devel/openmp: update to 9.0.0Jan Beich2019-09-213-3/+3
* biology/p5-TrimGalore: Upgrade to 0.6.4Jason W. Bacon2019-09-212-5/+5
* biology/fastqc: Upgrade to 0.11.8Jason W. Bacon2019-09-213-14/+12
* biology/diamond: Update to version 0.9.26Joseph Mingrone2019-09-182-4/+4
* Fix some misspelled or duplicated LICENSE_*Tobias Kortkamp2019-09-171-1/+1
* biology/haplohseq: Identify regions of allelic imbalanceJason W. Bacon2019-09-168-0/+185
* Deprecate a few portsAntoine Brodin2019-09-152-0/+4
* Drop C++11 workaround for GCC < 6 after r449590Jan Beich2019-09-142-36/+1
* biology/trimmomatic: Upgrade to 0.39Jason W. Bacon2019-09-144-4/+14
* biology/bedtools: Upgrade to 2.29.0Jason W. Bacon2019-09-135-49/+64
* biology/py-cutadapt: Upgrade to 2.5Jason W. Bacon2019-09-132-5/+6
* biology/phyml: update to 3.3.20190909Fernando Apesteguía2019-09-102-6/+6
* Update to 1.007006 (1.7.6)Sunpoet Po-Chuan Hsieh2019-09-073-19/+8
* Fix after gets(3) retirement using gets_s(3).Cy Schubert2019-09-021-1/+1
* Add a patch to remove use of gets(3)Li-Wen Hsu2019-09-012-0/+169
* biology/py-pysam: Update 0.15.2 -> 0.15.3Yuri Victorovich2019-08-312-4/+4
* biology/ngs-sdk: Update 2.9.6 -> 2.10.0Yuri Victorovich2019-08-314-13/+13
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