<<< ebuild_deprecated_eclasses >>> 7|sci-biology/foldingathome|foldingathome-7.6.13.ebuild|user|sci-biology@gentoo.org 6|sci-biology/kallisto|kallisto-0.43.1.ebuild|cmake-utils|sci-biology@gentoo.org 6|sci-biology/kallisto|kallisto-9999.ebuild|cmake-utils|sci-biology@gentoo.org 5|sci-biology/psipred|psipred-3.5.ebuild|versionator|sci-biology@gentoo.org 5|sci-biology/wise|wise-2.4.0_alpha.ebuild|versionator|sci-biology@gentoo.org <<< ebuild_homepage_301_redirections >>> 7|200|dev-libs/igraph|igraph-0.8.3.ebuild|http://www.igraph.org/|https://igraph.org/|gentoo@aisha.cc:sci-biology@gentoo.org 7|200|sci-biology/biopandas|biopandas-0.2.7.ebuild|https://pypi.org/project/BioPandas/|https://pypi.org/project/biopandas/|sci-biology@gentoo.org 5|200|sci-biology/bioperl|bioperl-1.6.9.ebuild|http://www.bioperl.org/|https://bioperl.org/|sci-biology@gentoo.org 5|200|sci-biology/bioperl-db|bioperl-db-1.6.9.ebuild|http://www.bioperl.org/|https://bioperl.org/|sci-biology@gentoo.org 5|200|sci-biology/bioperl-network|bioperl-network-1.6.9.ebuild|http://www.bioperl.org/|https://bioperl.org/|sci-biology@gentoo.org 5|200|sci-biology/bioperl-run|bioperl-run-1.6.9.ebuild|http://www.bioperl.org/|https://bioperl.org/|sci-biology@gentoo.org 6|200|sci-biology/biosql|biosql-1.0.1-r1.ebuild|http://www.biosql.org/|https://biosql.org/|sci-biology@gentoo.org 6|200|sci-biology/blat|blat-34-r2.ebuild|http://www.cse.ucsc.edu/~kent/|https://users.soe.ucsc.edu/~kent/|sci-biology@gentoo.org 7|200|sci-biology/clustalw-mpi|clustalw-mpi-0.13-r3.ebuild|http://www.bii.a-star.edu.sg/achievements/applications/clustalw/index.php|https://www.a-star.edu.sg/bii|sci-biology@gentoo.org 6|200|sci-biology/dialign2|dialign2-2.2.1.ebuild|http://bibiserv.techfak.uni-bielefeld.de/dialign|https://bibiserv.cebitec.uni-bielefeld.de/dialign|sci-biology@gentoo.org 7|403|sci-biology/gatk|gatk-2.4.ebuild|http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit|https://gatk.broadinstitute.org/hc/en-us|sci-biology@gentoo.org 6|000|sci-biology/kalign|kalign-2.03-r2.ebuild|http://msa.cgb.ki.se/|https://msa.cgb.ki.se/|sci-biology@gentoo.org 7|200|sci-biology/mothur|mothur-1.27.0-r1.ebuild|https://www.mothur.org/|https://mothur.org/|sci-biology@gentoo.org 6|200|sci-biology/njplot|njplot-2.3-r2.ebuild|http://pbil.univ-lyon1.fr/software/njplot.html|http://doua.prabi.fr/software/njplot|sci-biology@gentoo.org 6|200|sci-biology/prints|prints-39.0-r1.ebuild|http://www.bioinf.man.ac.uk/dbbrowser/PRINTS/|http://130.88.97.239/PRINTS/|sci-biology@gentoo.org 7|200|sci-biology/seaview|seaview-4.6-r1.ebuild|http://pbil.univ-lyon1.fr/software/seaview.html|http://doua.prabi.fr/software/seaview|sci-biology@gentoo.org 7|200|sci-biology/sim4|sim4-20030921-r2.ebuild|http://globin.cse.psu.edu/html/docs/sim4.html|https://globin.bx.psu.edu/html/docs/sim4.html|sci-biology@gentoo.org 6|200|sci-biology/transfac|transfac-3.2-r1.ebuild|http://www.gene-regulation.com/pub/databases.html|http://gene-regulation.com/pub/databases.html|sci-biology@gentoo.org 7|403|sci-biology/unafold|unafold-3.8-r1.ebuild|http://mfold.rna.albany.edu/|https://www.albany.edu/rna?r=unafold-web-server-discontinued|sci-biology@gentoo.org 7|400|sci-biology/update-blastdb|update-blastdb-12.0.0.ebuild|http://www.ncbi.nlm.nih.gov/books/bv.fcgi?rid=toolkit|https://www.ncbi.nlm.nih.gov/IEB/ToolBox/CPP_DOC/book/redirector.cgi?url=%2Fbooks%2Fbv.fcgi%3Frid%3Dtoolkit|sci-biology@gentoo.org 5|404|sci-biology/wise|wise-2.4.0_alpha.ebuild|http://www.ebi.ac.uk/Wise2/|https://www.ebi.ac.uk/Wise2|sci-biology@gentoo.org 6|301|sci-visualization/circos|circos-0.55-r1.ebuild|http://mkweb.bcgsc.ca/circos/|http://mkweb.bcgsc.ca/circos/|sci-biology@gentoo.org <<< ebuild_homepage_http_statuscode >>> 7|000|sci-biology/biopython|biopython-1.77|https://www.biopython.org/|sci-biology@gentoo.org|757867:780345 6|404|sci-biology/cd-hit|cd-hit-4.6.6|http://weizhong-lab.ucsd.edu/cd-hit/|sci-biology@gentoo.org|755290 6|404|sci-biology/elph|elph-1.0.1-r1|http://cbcb.umd.edu/software/ELPH/|sci-biology@gentoo.org 5|000|sci-biology/fasta|fasta-36.3.5e|https://fasta.bioch.virginia.edu/fasta_www2/fasta_down.shtml|sci-biology@gentoo.org|648618:741186 7|000|sci-biology/finchtv|finchtv-1.3.1-r3|http://www.geospiza.com/finchtv/|sci-biology@gentoo.org 7|000|sci-biology/gibbs|gibbs-3.1|http://bayesweb.wadsworth.org/gibbs/gibbs.html|sci-biology@gentoo.org 7|000|sci-biology/poa|poa-2-r1|http://bioinfo.mbi.ucla.edu/poa/|sci-biology@gentoo.org 6|000|sci-biology/prodigal|prodigal-2.6.3|http://prodigal.ornl.gov/|sci-biology@gentoo.org 7|404|sci-biology/qrna|qrna-2.0.3c-r3|http://selab.janelia.org/software.html|sci-biology@gentoo.org 7|000|sci-biology/raxml|raxml-7.2.6|http://wwwkramer.in.tum.de/exelixis/software.html|sci-biology@gentoo.org 6|403|sci-biology/rebase|rebase-1901|http://rebase.neb.com|sci-biology@gentoo.org 6|404|sci-biology/rnaview|rnaview-20040713-r4|http://ndbserver.rutgers.edu/services/download/index.html|sci-biology@gentoo.org 7|000|sci-biology/treeviewx|treeviewx-0.5.1-r3|http://darwin.zoology.gla.ac.uk/~rpage/treeviewx/|sci-biology@gentoo.org|780456 6|000|sci-libs/libgenome|libgenome-1.3-r1|http://gel.ahabs.wisc.edu/mauve/|sci-biology@gentoo.org 6|000|sci-libs/libmems|libmems-1.6_p1-r3|http://gel.ahabs.wisc.edu/mauve/|sci-biology@gentoo.org|677558 6|000|sci-libs/libmems|libmems-9999|http://gel.ahabs.wisc.edu/mauve/|sci-biology@gentoo.org|677558 6|000|sci-libs/libmuscle|libmuscle-3.7-r3|http://gel.ahabs.wisc.edu/mauve/|sci-biology@gentoo.org <<< ebuild_homepage_redirection_http_to_https >>> 6|sci-biology/trf|trf-4.04-r1.ebuild|http://tandem.bu.edu/trf/trf.html|https://tandem.bu.edu/trf/trf.html|sci-biology@gentoo.org <<< ebuild_homepage_unsync >>> 2|sci-biology/clustalw|sci-biology@gentoo.org 2|sci-biology/samtools|sci-biology@gentoo.org <<< ebuild_nonexist_dependency >>> 7|sci-biology/update-blastdb|update-blastdb-12.0.0.ebuild|sci-biology/ncbi-tools++|sci-biology@gentoo.org <<< ebuild_obsolete_gentoo_mirror_usage >>> 6|sci-biology/aaindex|aaindex-9.1-r1.ebuild|sci-biology@gentoo.org 7|sci-biology/gibbs|gibbs-3.1.ebuild|sci-biology@gentoo.org 6|sci-biology/prints|prints-39.0-r1.ebuild|sci-biology@gentoo.org 7|sci-biology/qrna|qrna-2.0.3c-r3.ebuild|sci-biology@gentoo.org 6|sci-biology/rnaview|rnaview-20040713-r4.ebuild|sci-biology@gentoo.org 7|sci-biology/sim4|sim4-20030921-r2.ebuild|sci-biology@gentoo.org 6|sci-libs/libgenome|libgenome-1.3-r1.ebuild|sci-biology@gentoo.org 6|sci-libs/libmuscle|libmuscle-3.7-r3.ebuild|sci-biology@gentoo.org <<< ebuild_src_uri_check >>> 6|sci-biology/amap|amap-2.2-r3|http://baboon.math.berkeley.edu/amap/download/amap.2.2.tar.gz|sci-biology@gentoo.org|626674:725288 7|sci-biology/clustalw-mpi|clustalw-mpi-0.13-r3|http://web.bii.a-star.edu.sg/~kuobin/clustalw-mpi/clustalw-mpi-0.13.tar.gz|sci-biology@gentoo.org 7|sci-biology/clustalx|clustalx-2.1-r3|https://dev.gentoo.org/~jlec/distfiles/clustalx.png.xz|sci-biology@gentoo.org 7|sci-biology/cutg|cutg-160-r1|https://dev.gentoo.org/~jlec/distfiles/cutg-160.tar.xz|sci-biology@gentoo.org 6|sci-biology/eugene|eugene-4.1d|https://mulcyber.toulouse.inra.fr/frs/download.php/1359/eugene-4.1d.tar.gz|sci-biology@gentoo.org|741184 7|sci-biology/finchtv|finchtv-1.3.1-r3|http://www.geospiza.com/finchtv/download/programs/linux/finchtv_1_3_1.tar.gz|sci-biology@gentoo.org 5|sci-biology/picard|picard-1.103|https://dev.gentoo.org/~ercpe/distfiles/sci-biology/picard/picard-1.103.tar.bz2|sci-biology@gentoo.org|671632:572142:580176:776298 6|sci-biology/prank|prank-140603|http://wasabiapp.org/download/prank/prank.source.140603.tgz|sci-biology@gentoo.org 5|sci-biology/psipred|psipred-3.5|http://bioinfadmin.cs.ucl.ac.uk/downloads/psipred/old/data/tdbdata.tar.gz|sci-biology@gentoo.org 5|sci-biology/psipred|psipred-3.5|http://bioinf.cs.ucl.ac.uk/downloads/psipred/psipred3.5.tar.gz|sci-biology@gentoo.org 7|sci-biology/raxml|raxml-7.2.6|http://wwwkramer.in.tum.de/exelixis/software/RAxML-7.2.6.tar.bz2|sci-biology@gentoo.org 6|sci-biology/rebase|rebase-1901|https://dev.gentoo.org/~jlec/distfiles/rebase-1901.tar.xz|sci-biology@gentoo.org 6|sci-biology/recon|recon-1.08|http://www.repeatmasker.org/RECON-1.08.tar.gz|sci-biology@gentoo.org|716082 5|sci-biology/repeatmasker|repeatmasker-4.0.1|http://www.repeatmasker.org/RepeatMasker-open-4-0-1.tar.gz|sci-biology@gentoo.org 7|sci-biology/stride|stride-20011129-r1|https://dev.gentoo.org/~jlec/distfiles/stride-20060723-update.patch.bz2|sci-biology@gentoo.org|689774 6|sci-biology/t-coffee|t-coffee-11.00-r2|http://www.tcoffee.org/Packages/Beta/Latest/T-COFFEE_distribution_Version_11.00.4466924.tar.gz|sci-biology@gentoo.org|725312:731862 7|sci-biology/treeviewx|treeviewx-0.5.1-r3|http://darwin.zoology.gla.ac.uk/~rpage/treeviewx/download/0.5/tv-0.5.1.tar.gz|sci-biology@gentoo.org|780456 6|sci-biology/ucsc-genome-browser|ucsc-genome-browser-260-r1|http://hgdownload.cse.ucsc.edu/admin/jksrc.v260.zip|sci-biology@gentoo.org|402835:339557:438636:688748:716078:725328:776877 7|sci-biology/unafold|unafold-3.8-r1|http://dinamelt.bioinfo.rpi.edu/download/unafold-3.8.tar.bz2|sci-biology@gentoo.org|389765:597242:657602 6|sci-biology/yass|yass-1.14-r2|http://bioinfo.lifl.fr/yass/files/yass-1.14.tar.gz|sci-biology@gentoo.org|776304 7|sci-libs/dcmtk|dcmtk-3.6.5|https://dicom.offis.de/download/dcmtk/release/dcmtk-3.6.5.tar.gz|sci-biology@gentoo.org|669806:672198 6|sci-libs/libmems|libmems-1.6_p1-r3|https://dev.gentoo.org/~jlec/distfiles/libmems-1.6_p1.tar.xz|sci-biology@gentoo.org|677558 6|sci-visualization/circos|circos-0.55-r1|http://mkweb.bcgsc.ca/circos/distribution/circos-0.55.tgz|sci-biology@gentoo.org <<< ebuild_src_uri_offline >>> 7|sci-biology/stride|stride-20011129-r1|https://dev.gentoo.org/~jlec/distfiles/stride-20060723-update.patch.bz2|sci-biology@gentoo.org|689774 <<< ebuild_unused_eclasses >>> 6|sci-biology/cd-hit|cd-hit-4.6.6.ebuild|flag-o-matic|sci-biology@gentoo.org 7|sci-biology/clustalw-mpi|clustalw-mpi-0.13-r3.ebuild|toolchain-funcs|sci-biology@gentoo.org 6|sci-biology/mira|mira-4.0.2.ebuild|eutils|sci-biology@gentoo.org <<< metadata_duplicate_useflag_description >>> sci-biology/newick-utils|xml|sci-biology@gentoo.org <<< packages_full_repoman >>> sci-biology/bioperl-network|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/bioperl-run|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/diya|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/fasta|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/foldingathome|inherit.deprecated|sci-biology@gentoo.org sci-biology/GBrowse|dependency.deprecated:repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/kallisto|inherit.deprecated|sci-biology@gentoo.org sci-biology/mrbayes|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/ncbi-tools|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/picard|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/plink|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/psipred|inherit.deprecated:repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/repeatmasker|ebuild.absdosym:repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/rmblast|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/trf|ebuild.absdosym|sci-biology@gentoo.org sci-biology/ucsc-genome-browser|upstream.workaround|sci-biology@gentoo.org sci-biology/velvet|repo.eapi-deprecated:upstream.workaround|sci-biology@gentoo.org sci-biology/wise|inherit.deprecated:repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/wgs-assembler|upstream.workaround|sci-biology@gentoo.org sci-libs/profnet|repo.eapi-deprecated|sci-biology@gentoo.org sci-libs/profphd-utils|repo.eapi-deprecated|sci-biology@gentoo.org sci-visualization/circos|ebuild.absdosym|sci-biology@gentoo.org sci-biology/gatk|dependency.missingslot|sci-biology@gentoo.org sci-biology/bioperl|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/bioperl-db|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/treeviewx|dependency.deprecated|sci-biology@gentoo.org