directoryPackageNowUpdate-ToTODOMAINTAINERMASTER_SITES (only the first one checked)
biology/azara azara 2.7->0.0mchittur@cs.nhttp://www.ccpn.ac.uk/download/azara/
biology/balance-tuibalance-tui0.1.2->0.0pkgsrc-usershttps://static.crates.io/crates/balance-tui/
biology/beaglebeagle5.2->0.0pkgsrc-usershttps://faculty.washington.edu/browning/beagle/
biology/bioperlbioperl1.7.7->1.0070021.7.8pkgsrc-usershttps://www.cpan.org/modules/by-module/Bio/
biology/bodr bodr 9->0.0jihbed.researhttps://downloads.sourceforge.net/sourceforge/bodr/
biology/bwabwa0.7.17->0.7.18baconhttps://github.com/lh3/
biology/canucanu2.2->2.3baconhttps://github.com/marbl/
biology/coordgenlibscoordgenlibs1.4.2->3.0.22.0.3bsiegerthttps://github.com/schrodinger/
biology/fastpfastp0.22.0->0.24.0baconhttps://github.com/OpenGene/
biology/fastqcfastqc0.11.9->0.0baconhttps://www.bioinformatics.babraham.ac.uk/projects/fastqc/
biology/filter-fastqfilter-fastq0.0.0.20210527->0.0pkgsrc-usershttps://github.com/stephenfloor/
biology/fluctuate fluctuate 1.4->0.0brook@nmsu.edhttp://evolution.gs.washington.edu/lamarc/fluctuate/
biology/gabeditgabedit2.4.8->0.0asau@inbox.ruhttps://downloads.sourceforge.net/sourceforge/gabedit/
biology/genesplicergenesplicer20030403->0.0pkgsrc-usersftp://ftp.tigr.org/pub/software/GeneSplicer/
biology/glimmerglimmer2.13->0.0pkgsrc-usersftp://ftp.tigr.org/pub/software/Glimmer/
biology/gromacsgromacs4.5.5->2025.02021.1pkgsrc-usersftp://ftp.gromacs.org/pub/gromacs/
biology/gromacsgromacs4.5.5->2024.52021.1pkgsrc-usersftp://ftp.gromacs.org/pub/gromacs/
biology/hmmerhmmer3.0->3.43.1b2pkgsrc-usershttp://eddylab.org/software/hmmer/
biology/igvigv2.9.2->0.0baconhttps://data.broadinstitute.org/igv/projects/downloads/2.9/
biology/lucylucy1.20->0.0dprice@cs.nmshttps://downloads.sourceforge.net/sourceforge/lucy/
biology/maeparsermaeparser1.2.4->1.3.1bsiegerthttps://github.com/schrodinger/
biology/molsketchmolsketch0.8.1->0.0pinhttps://downloads.sourceforge.net/sourceforge/molsketch/
biology/mopacmopac22.0.6->23.1.2pkgsrc-usershttps://github.com/openmopac/
biology/mopacmopac22.0.6->23.1.0pkgsrc-usershttps://github.com/openmopac/
biology/mpqcmpqc2.3.1->0.0asau@inbox.ruhttps://downloads.sourceforge.net/sourceforge/mpqc/
biology/mummermummer3.20->0.0pkgsrc-usershttps://downloads.sourceforge.net/sourceforge/mummer/
biology/ncbi-blast+ncbi-blast+2.16.0->0.0baconhttps://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/
biology/nutsqlitenutsqlite2.0.6->0.0pkgsrc-usershttps://downloads.sourceforge.net/sourceforge/nut/
biology/pdbalign pdbalign 20030812->0.0pkgsrc-usersftp://ftp.ebi.ac.uk/pub/software/unix/pdbalign/
biology/primer3primer32.3.6->0.0pkgsrc-usershttps://downloads.sourceforge.net/sourceforge/primer3/
biology/puzzlepuzzle5.2->5.3babafou@babafhttp://www.tree-puzzle.de/
biology/py-biopythonpy312-biopython1.85->0.0pkgsrc-usershttp://biopython.org/DIST/
biology/py-macs2py312-macs22.2.9.1->3.0.3baconhttps://github.com/taoliu/
biology/py-macs3py312-macs33.0.2->3.0.3baconhttps://github.com/macs3-project/
biology/py-macs2py312-macs22.2.9.1->3.0.2baconhttps://github.com/taoliu/
biology/rasmolrasmol2.7.3->0.02.7.5.2pkgsrc-usershttp://www.bernstein-plus-sons.com/software/
biology/rna-starrna-star2.7.10b->2.7.11baconhttps://github.com/alexdobin/
biology/stride stride 20030804->0.0pkgsrc-usersftp://ftp.ebi.ac.uk/pub/software/unix/stride/src/
biology/stringtiestringtie2.1.1->3.0.0baconhttp://ccb.jhu.edu/software/stringtie/dl/
biology/trimmomaticTrimmomatic0.38->0.39baconhttp://www.usadellab.org/cms/uploads/supplementary/Trimmomatic/
biology/vsearchvsearch2.29.2->2.29.3baconhttps://github.com/torognes/
biology/bcf-scorebcf-score1.20->0.0baconhttps://software.broadinstitute.org/software/score/
biology/bio-mochabio-mocha1.20->0.0baconhttps://software.broadinstitute.org/software/mocha/
biology/fasttreeFastTree2.1.11->0.0baconhttp://www.microbesonline.org/fasttree/
biology/subreadsubread2.0.8->0.0baconhttps://downloads.sourceforge.net/sourceforge/subread/