directoryPackageNow Update-ToTODOMAINTAINERMASTER_SITES (only the first one checked)
biology/azara azara (-1) 2.7 ->0.0mchittur@cs.nhttp://www.ccpn.ac.uk/download/azara/(404)
biology/beagle beagle 5.2 ->0.0pkgsrc-usershttps://faculty.washington.edu/browning/beagle/
biology/biolibc biolibc 0.2.1 ->0.0baconhttps://github.com/auerlab/
biology/biolibc-tools biolibc-tools (429) 0.1.1 ->0.0baconhttps://github.com/auerlab/(429)
biology/bioperl bioperl 1.7.7 ->1.0070021.7.8pkgsrc-usershttps://cpan.perl.org/CPAN/modules/by-module/Bio/
biology/bodr bodr (empty) 9 ->0.0jihbed.researhttp://downloads.sourceforge.net/sourceforge/bodr/(DNS)
biology/bowtie2 bowtie2 (429) 2.4.4 ->0.0baconhttps://github.com/BenLangmead/(429)
biology/bwa bwa (DNS) 0.7.17 ->0.0baconhttps://github.com/lh3/(429)
biology/canu canu 1.8 ->2.22.1.1baconhttps://github.com/marbl/
biology/cdhit cdhit 4.8.1 ->454.baconhttps://github.com/weizhongli/
biology/coordgenlibs coordgenlibs (429) 1.4.2 ->3.0.02.0.3bsiegerthttps://github.com/schrodinger/
biology/fastp fastp 0.20.0 ->0.23.20.20.1baconhttps://github.com/OpenGene/
biology/fastqc fastqc 0.11.9 ->0.0baconhttps://www.bioinformatics.babraham.ac.uk/projects/fastqc/
biology/filter-fastq filter-fastq 0.0.0.20210527 ->0.0pkgsrc-usershttps://github.com/stephenfloor/
biology/fluctuate fluctuate (empty) 1.4 ->0.0brook@nmsu.edhttp://evolution.gs.washington.edu/lamarc/fluctuate/
biology/gabedit gabedit (DNS) 2.4.8 ->0.0asau@inbox.ruhttp://downloads.sourceforge.net/sourceforge/gabedit/(DNS)
biology/genesplicer genesplicer (none) 20030403 ->0.0hdp@cs.nmsu.eftp://ftp.tigr.org/pub/software/GeneSplicer/(none)
biology/glimmer glimmer (none) 2.13 ->0.0hdp@cs.nmsu.eftp://ftp.tigr.org/pub/software/Glimmer/(none)
biology/gnome-chemistry-utils gnome-chemistry-utils 0.14.16 ->0.14.17pkgsrc-usershttp://download-mirror.savannah.gnu.org/releases/gchemutils/0.14/
biology/gromacs gromacs 4.5.5 ->2021.52021.1pkgsrc-usersftp://ftp.gromacs.org/pub/gromacs/
biology/hisat2 hisat2 2.1.0.23 ->0.0baconhttps://github.com/infphilo/
biology/hmmer hmmer 3.0 ->3.13.1b2hdp@cs.nmsu.ehttp://ftp-stud.fht-esslingen.de/pub/Mirrors/gentoo/distfiles/
biology/htslib htslib 1.14 ->0.0baconhttps://github.com/samtools/htslib/releases/download/1.14/(404)
biology/igv igv 2.9.2 ->0.0baconhttps://data.broadinstitute.org/igv/projects/downloads/2.9/
biology/kallisto kallisto 0.46.1 ->0.46.20.46.2baconhttps://github.com/pachterlab/
biology/lucy lucy (DNS) 1.20 ->0.0dprice@cs.nmshttp://downloads.sourceforge.net/sourceforge/lucy/(DNS)
biology/miniasm miniasm 0.3 ->7.5pkgsrc-usershttps://github.com/lh3/
biology/minimap2 minimap2 (429) 2.18 ->7.5pkgsrc-usershttps://github.com/lh3/
biology/molsketch molsketch (DNS) 0.7.2 ->0.0pinhttp://downloads.sourceforge.net/sourceforge/molsketch/(DNS)
biology/mopac mopac 7.0 ->7.01-3pkgsrc-usershttp://server.ccl.net/cca/software/LINUX/mopac7/
biology/mpqc mpqc 2.3.1 ->0.0asau@inbox.ruhttp://downloads.sourceforge.net/sourceforge/mpqc/(DNS)
biology/mummer mummer (DNS) 3.20 ->3.0hdp@cs.nmsu.ehttp://downloads.sourceforge.net/sourceforge/mummer/
biology/ncbi-blast+ ncbi-blast+ 2.11.0 ->0.0baconhttps://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/LATEST/
biology/nut nut (DNS) 15.8 ->0.020.1pkgsrc-usershttp://downloads.sourceforge.net/sourceforge/nut/(DNS)
biology/openbabel openbabel 3.1.1 ->3.pkgsrc-usershttps://github.com/openbabel/
biology/pdbalign pdbalign (empty) 20030812 ->0.0hdp@cs.nmsu.eftp://ftp.ebi.ac.uk/pub/software/unix/pdbalign/
biology/plinkseq plinkseq (none) 0.08 ->0.0baconhttps://atgu.mgh.harvard.edu/plinkseq/dist/version-0.08/(none)
biology/primer3 primer3 (DNS) 2.3.6 ->0.0pkgsrc-usershttp://downloads.sourceforge.net/sourceforge/primer3/(DNS)
biology/profit profit (none) 2.2 ->0.02.5.3hdp@cs.nmsu.ehttp://acrmwww.biochem.ucl.ac.uk/software/profit/235216/(none)
biology/puzzle puzzle 5.2 ->5.3babafou@babafhttp://www.tree-puzzle.de/
biology/py-biopython py39-biopython 1.74 ->0.0pkgsrc-usershttp://biopython.org/DIST/