<<< BAS-IMP-ebuild_multiple_deps_per_line >>> sci-biology/cegma|cegma-2.5.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/gatk|gatk-3.8.1.ebuild|sci-biology@gentoo.org sci-biology/gatk|gatk-9999.ebuild|sci-biology@gentoo.org sci-biology/genometools|genometools-1.5.10.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/maker|maker-2.31.10.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/maker|maker-3.01.02_beta.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/megahit|megahit-9999.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ncbi-blast+|ncbi-blast+-2.2.30.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ncbi-blast+|ncbi-blast+-2.2.31.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ncbi-blast+|ncbi-blast+-2.6.0.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ncbi-blast+|ncbi-blast+-2.8.1.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ncbi-tools++|ncbi-tools++-12.0.0.ebuild|sci-biology@gentoo.org sci-biology/ncbi-tools++|ncbi-tools++-18.0.0.ebuild|sci-biology@gentoo.org sci-biology/ncbi-tools++|ncbi-tools++-22.0.0.ebuild|sci-biology@gentoo.org sci-biology/phusion|phusion-2.1c.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/prokka|prokka-1.11.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/tensorflow|tensorflow-1.5.0.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/tensorflow|tensorflow-1.7.0.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/tensorflow|tensorflow-1.8.0.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< DEL-BUG-ebuild_deprecated_eclasses >>> 5|dev-python/opal-client|opal-client-2.4.1.ebuild|versionator|sci-biology@gentoo.org 5|sci-biology/amos|amos-9999.ebuild|autotools-utils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/clover|clover-2011.10.24.ebuild|versionator|maintainer-wanted@gentoo.org:sci-biology@gentoo.org 5|sci-biology/codonw|codonw-1.4.4-r2.ebuild|versionator|sci-biology@gentoo.org 6|sci-biology/deeptools|deeptools-2.5.0.ebuild|git-2|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/deeptools|deeptools-9999.ebuild|git-2|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/exonerate-gff3|exonerate-gff3-9999.ebuild|autotools-utils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/germline|germline-1.5.1.ebuild|versionator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/germline|germline-1.5.2.ebuild|versionator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/gmap|gmap-2016.11.07.ebuild|versionator|sci-biology@gentoo.org 6|sci-biology/imagej|imagej-1.51k.ebuild|versionator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/OBO-Edit|OBO-Edit-2.1.0.ebuild|versionator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/OBO-Edit|OBO-Edit-2.1.1.6.ebuild|versionator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/plinkseq|plinkseq-0.10.ebuild|autotools-utils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/proda|proda-1.0.ebuild|versionator|sci-biology@gentoo.org 5|sci-biology/staden|staden-2.0.0_beta10.ebuild|autotools-utils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/staden|staden-2.0.0_beta11.ebuild|autotools-utils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/staden|staden-9999.ebuild|autotools-utils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/wcd|wcd-0.6.3.ebuild|autotools-utils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/wise|wise-2.4.1.ebuild|versionator|sci-biology@gentoo.org 6|sci-libs/tensorflow|tensorflow-1.8.0.ebuild|versionator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< ECU-BUG-ebuild_missing_eclasses >>> 7|sci-biology/augustus|augustus-3.3.2.ebuild|epatch|sci-biology@gentoo.org 6|sci-biology/bedops|bedops-2.4.26.ebuild|epatch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/blat|blat-36.ebuild|epatch|sci-biology@gentoo.org 6|sci-biology/flexbar|flexbar-2.7.0.ebuild|flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/flexbar|flexbar-3.0.0.ebuild|flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/fsl|fsl-5.0.8.ebuild|epatch|sci-biology@gentoo.org 6|sci-biology/imagej|imagej-1.51k.ebuild|epatch:desktop|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/ncbi-blast+|ncbi-blast+-2.2.30.ebuild|epatch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/ncbi-blast+|ncbi-blast+-2.2.31.ebuild|epatch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/ncbi-blast+|ncbi-blast+-2.6.0.ebuild|epatch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/ncbi-blast+|ncbi-blast+-2.8.1.ebuild|epatch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/picard|picard-2.2.2.ebuild|epatch|ercpe@gentoo.org:sci-biology@gentoo.org 6|sci-biology/Rcorrector|Rcorrector-9999.ebuild|epatch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/reapr|reapr-1.0.18.ebuild|epatch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/SOAPdenovo2|SOAPdenovo2-241.ebuild|epatch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/tablet-bin|tablet-bin-1.17.08.17.ebuild|versionator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/tigr-foundation-libs|tigr-foundation-libs-2.0-r1.ebuild|epatch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/trf-bin|trf-bin-4.09.ebuild|desktop|sci-biology@gentoo.org 6|sci-libs/lib2bit|lib2bit-0.2.1.ebuild|epatch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-libs/tensorflow|tensorflow-1.8.0.ebuild|flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< ECU-BUG-ebuild_unused_eclasses >>> 7|sci-biology/augustus|augustus-3.3.2.ebuild|eutils|sci-biology@gentoo.org 7|sci-biology/bamql|bamql-1.6.1.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/bedops|bedops-2.4.26.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/blat|blat-36.ebuild|eutils|sci-biology@gentoo.org 7|sci-biology/chiron|chiron-9999.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/freebayes|freebayes-9999.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/fsl|fsl-5.0.11.ebuild|flag-o-matic|sci-biology@gentoo.org 6|sci-biology/fsl|fsl-5.0.8.ebuild|eutils|sci-biology@gentoo.org 6|sci-biology/imagej|imagej-1.51k.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/jellyfish|jellyfish-1.1.12.ebuild|eutils:flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/jellyfish|jellyfish-2.1.3-r1.ebuild|eutils:flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/jellyfish|jellyfish-2.1.4-r1.ebuild|eutils:flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/jellyfish|jellyfish-2.2.10.ebuild|eutils:flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/jellyfish|jellyfish-2.3.0.ebuild|eutils:flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/KaKs_Calculator|KaKs_Calculator-1.2.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/KaKs_Calculator|KaKs_Calculator-2.0.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/kat|kat-2.4.2.ebuild|flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/kat|kat-9999.ebuild|flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/KING|KING-20161017.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/megahit|megahit-9999.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/ncbi-blast+|ncbi-blast+-2.2.30.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/ncbi-blast+|ncbi-blast+-2.2.31.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/ncbi-blast+|ncbi-blast+-2.6.0.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/ncbi-blast+|ncbi-blast+-2.8.1.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/nextclip|nextclip-1.3.1.ebuild|flag-o-matic|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/ntCard|ntCard-1.1.0.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/ntCard|ntCard-9999.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/nxtrim|nxtrim-9999.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/Rcorrector|Rcorrector-9999.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/reapr|reapr-1.0.18.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/rtg-tools|rtg-tools-9999.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/samstat|samstat-1.5.1.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/SEECER|SEECER-0.1.3-r2.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/seq_crumbs|seq_crumbs-0.1.9.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/SOAPdenovo2|SOAPdenovo2-241.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/SPAdes|SPAdes-3.13.0.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/tigr-foundation-libs|tigr-foundation-libs-2.0-r1.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/trf-bin|trf-bin-4.09.ebuild|eutils|sci-biology@gentoo.org 6|sci-libs/lib2bit|lib2bit-0.2.1.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-libs/tensorflow|tensorflow-1.0.1.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-libs/tensorflow|tensorflow-1.5.0.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-libs/tensorflow|tensorflow-1.7.0.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-libs/tensorflow|tensorflow-1.8.0.ebuild|eutils|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< PAC-BUG-ebuild_unused_patches_simple >>> sci-biology/cluster|je_fro@gentoo.org:sci-biology@gentoo.org sci-biology/quorum|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/tablet|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< PAT-BUG-ebuild_unused_patches >>> sci-biology/bowtie|bowtie-1.2.2-_ContextLss-1.1-1.4.patch|sci-biology@gentoo.org sci-biology/bowtie|bowtie-1.2.2-fix-Intel-compilation.patch|sci-biology@gentoo.org sci-biology/bowtie|bowtie-1.2.2-unbundle-seqan.patch|sci-biology@gentoo.org sci-biology/bowtie|bowtie-1.2.2-void2int.patch|sci-biology@gentoo.org sci-biology/caftools|Makefile.in.patch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cluster|cluster-1.38-helpmenu-fix.patch|je_fro@gentoo.org:sci-biology@gentoo.org sci-biology/fsl|fsl-5.0.4-headers.patch|sci-biology@gentoo.org sci-biology/fsl|fsl-5.0.4-setup.patch|sci-biology@gentoo.org sci-biology/fsl|fsl-5.0.6-fsldir_redux.patch|sci-biology@gentoo.org sci-biology/igv|2.3.52-remove-oracle.jdbc.patch|sci-biology@gentoo.org sci-biology/quorum|quorum-0.2.1-use-jellyfish1.patch|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/SOAPdenovo2|soapdenovo2.1|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/tablet|response.varfile|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/itk|0001-BUG-Wrap-TransformFileReader-TransformFileWriter.patch|maintainer-wanted@gentoo.org:sci-biology@gentoo.org sci-libs/itk|0002-COMP-Fixed-itkQuasiNewtonOptimizerv4-wrapping-warnin.patch|maintainer-wanted@gentoo.org:sci-biology@gentoo.org sci-libs/itk|0003-COMP-Fixed-itkGradientDescentOptimizerv4-wrapping-wa.patch|maintainer-wanted@gentoo.org:sci-biology@gentoo.org sci-libs/itk|0004-COMP-Warp-OptimizerParameterScalesEstimatorTemplate.patch|maintainer-wanted@gentoo.org:sci-biology@gentoo.org sci-libs/itk|0005-make-gdcm-helper-library-static.patch|maintainer-wanted@gentoo.org:sci-biology@gentoo.org sci-libs/itk|nrrdio-linking.patch|maintainer-wanted@gentoo.org:sci-biology@gentoo.org <<< RMC-IMP-packages_full_repoman >>> dev-lang/yaggo|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Algorithm-Loops|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/BTLib|repo.eapi-deprecated|sci-biology@gentoo.org dev-perl/Bio-BigFile|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Bio-DB-Das-Chado|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Bio-DB-HTS|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/DBIx-DBStag|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Config-Std|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Data-Types|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Log-Cabin|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Scalar-Util-Numeric|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Set-IntSpan-Fast|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Text-Graph|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Text-ParseWords|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Text-RecordParser|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Time-Progress|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/go-db-perl|repo.eapi-deprecated|sci-biology@gentoo.org dev-perl/go-perl|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-python/GOGrapher|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-python/bcbio-gff|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-python/ngslib|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-python/opal-client|dependency.equalsversion:inherit.deprecated:repo.eapi-deprecated|sci-biology@gentoo.org dev-python/psubprocess|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-python/py2bit|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-python/pyBigWig|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-python/pyvcf|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-python/shove|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-python/xopen|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-util/makefile2graph|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/AlignGraph|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/Atlas-Link|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/Atlas|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ANGLE-bin|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/Atlas2|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/Atlas_GapFill|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/BRANCH|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/BamView|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/DisEMBL|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/BBmap|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/EBARDenovo|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/BlastToSam|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ESTate|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/FLASH|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/GAL|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/IMAGE|KEYWORDS.missing:repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ICC|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/MaSuRCA|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/InterMine|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/MagicViewer|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/MeV|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/MochiView|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/KING|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/MuSeqBox|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ORFcor|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/OBO-Edit|inherit.deprecated:repo.eapi-deprecated:upstream.workaround:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/RADtools|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/Rcorrector|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 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sci-biology/argo|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/amos|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/autoeditor|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bam-readcount|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bambino|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/barnacle|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/beagle|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/barrnap|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/beaglecall|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bfast|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bambus|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bedops|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/biobambam|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/biopieces|KEYWORDS.missing:dependency.badmasked:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/blue|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bio-cd-hit-report|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bismark|repo.eapi-deprecated|yanlinlin82@gmail.com:sci-biology@gentoo.org sci-biology/blat|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/brat|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/brat_bw|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/brat_nova|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/breakdancer|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cast-bin|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/caftools|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cd-hit-auxtools|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cd-hit|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/cdbfasta|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cegma|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cgview-bin|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cg-cat|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bx-python|repo.eapi-deprecated|mschu.dev@gmail.com:sci-biology@gentoo.org sci-biology/clover|inherit.deprecated:repo.eapi-deprecated|maintainer-wanted@gentoo.org:sci-biology@gentoo.org sci-biology/clview|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/conform-gt|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cluster|repo.eapi-deprecated|je_fro@gentoo.org:sci-biology@gentoo.org sci-biology/codonw|inherit.deprecated:repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/conrad|KEYWORDS.missing:dependency.badmasked:repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/conifer|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cnrun|repo.eapi-deprecated|johnhommer@gmail.com:sci-biology@gentoo.org sci-biology/cortex_var|KEYWORDS.missing:repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cramtools|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/coral|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cross_genome|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/consed2gap|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/dawg|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/diamond|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/deeptools|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cutadapt|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ePCR|KEYWORDS.missing:repo.eapi-deprecated:upstream.workaround|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/dna2pep|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 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sci-biology/estscan|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/fgap-bin|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/fastdnaml|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/ffindex|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/fgap|KEYWORDS.missing:dependency.badmasked:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/freebayes|repo.eapi-deprecated:upstream.workaround|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/fsa|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/gap2caf|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/full_lengther_next|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/fsl|file.size:repo.eapi-deprecated|sci-biology@gentoo.org 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sci-biology/grabix|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/gmap|inherit.deprecated:repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/graf-bin|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/glean|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/grass|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/grappa|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/hexamer|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/hts-python|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/gffutils|repo.eapi-deprecated|mschu.dev@gmail.com:sci-biology@gentoo.org sci-biology/hisat2|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 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sci-biology/kraken|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/khmer|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/kmergenie|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/lastz|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/last|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/lighter|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/lumpy-sv|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/lucy|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/libBigWig|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/mRNAmarkup|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/kat|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 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sci-biology/nwalign|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/oases|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/parafly|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/pairagon|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/pb-honey|KEYWORDS.missing:repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/pb-jelly|KEYWORDS.missing:dependency.badmasked:repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/perga|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/phusion|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/phusion2|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/pileup|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/oncotator|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/plinkseq|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/perlprimer|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/polyphen|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/picard|KEYWORDS.missing:repo.eapi-deprecated|ercpe@gentoo.org:sci-biology@gentoo.org sci-biology/primerD|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/plink|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/prinseq-lite|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/proovread|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/prokka|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/proda|inherit.deprecated:repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/prot4EST|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/psx|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/pvmsx|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/poretools|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/pyfaidx|repo.eapi-deprecated|mschu.dev@gmail.com:sci-biology@gentoo.org sci-biology/pysamstats|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/pybedtools|repo.eapi-deprecated|mschu.dev@gmail.com:sci-biology@gentoo.org sci-biology/quast|KEYWORDS.missing:repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/quicktree|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/quorum|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/reaper|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/reapr|KEYWORDS.missing:dependency.badmasked:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/reptile|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/rnaplex|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/roche454ace2caf|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/rtg-tools|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/rmblast|file.size:repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/sabre|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/sailfish|KEYWORDS.missing:repo.eapi-deprecated|sci-biology@gentoo.org:mschu.dev@gmail.com sci-biology/sambamba|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/samstat|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/scaffold_builder|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/rum|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/scan_for_matches|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/salmon|repo.eapi-deprecated|sci-biology@gentoo.org:mschu.dev@gmail.com sci-biology/ruffus|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/scbi_blast|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/scbi_fasta|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/scbi_fastq|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/scbi_mapreduce|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/scbi_plot|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/scbi_zcat|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/sclust|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/screed|repo.eapi-deprecated:uri.https|sci-biology@gentoo.org sci-biology/seq_crumbs|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/scythe|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/sga|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/seqclean|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/sff_dump|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/sickle|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/sgp2|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/seqtools|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/skewer-bin|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/signalp|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/smalt-bin|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/snphylo|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/smalt|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/snpomatic|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/snap|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/somatic-sniper|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ssaha2-bin|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/stacks|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/staden|KEYWORDS.missing:repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/staden_doc|KEYWORDS.missing:repo.eapi-deprecated:upstream.workaround:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/sra_sdk|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/stampy-bin|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/stringtie|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/subread|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/tagdust|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/tclust|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/swissknife|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/tigmint|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/tigr-foundation-libs|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/trans-abyss|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/tmhmm|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/trim_galore|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/trf-bin|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/trinityrnaseq|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/trf|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/trowel|repo.eapi-deprecated:uri.https|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/vcflib|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/trimmomatic|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/twinscan|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/vt|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/vcftools|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/verifyBamID|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/wcd|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/wgs_tools|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/weblogo|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/yaha|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/wise|file.size:inherit.deprecated:repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/wgs-assembler|repo.eapi-deprecated:upstream.workaround:uri.https|sci-biology@gentoo.org sci-biology/bwa|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/gffcompare|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/bloom|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/fast5|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/htslib-plugins|KEYWORDS.missing:repo.eapi-deprecated|sci-biology@gentoo.org sci-libs/jhdf5|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/lib2bit|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/libStatGen|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/libmaus|repo.eapi-deprecated|sci-biology@gentoo.org sci-libs/tensorflow|KEYWORDS.missing:inherit.deprecated:repo.eapi-deprecated:upstream.workaround|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/Fastaq|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/pilon-bin|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ntCard|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/pbbam|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/blasr|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/biobambam2|KEYWORDS.missing|sci-biology@gentoo.org sci-biology/canu|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ParaAT|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/MolBioLib|KEYWORDS.missing|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-java/htsjdk|KEYWORDS.missing:digest.unused|ercpe@gentoo.org:sci-biology@gentoo.org sci-biology/tablet-bin|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/NGSEPcore|KEYWORDS.missing|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/NGSEPplugin|KEYWORDS.missing:dependency.badmasked|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/tablet|KEYWORDS.missing|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bowtie|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/repeatmasker|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/ncbi-tools++|repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/vague-bin|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/maker|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/iRODS|KEYWORDS.missing:repo.eapi-deprecated|sci-biology@gentoo.org sci-biology/portrait|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org dev-perl/Bio-EnsEMBL|KEYWORDS.missing:repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/jellyfish|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/BRAKER|repo.eapi-deprecated|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/abyss|repo.eapi-deprecated|sci-biology@gentoo.org:haskell@gentoo.org <<< SIC-BUG-ebuild_epatch_in_eapi6 >>> sci-biology/bedops|bedops-2.4.26.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/blat|blat-36.ebuild|sci-biology@gentoo.org sci-biology/fsl|fsl-5.0.8.ebuild|sci-biology@gentoo.org sci-biology/imagej|imagej-1.51k.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/picard|picard-2.2.2.ebuild|ercpe@gentoo.org:sci-biology@gentoo.org sci-biology/Rcorrector|Rcorrector-9999.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/reapr|reapr-1.0.18.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/SOAPdenovo2|SOAPdenovo2-241.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/tigr-foundation-libs|tigr-foundation-libs-2.0-r1.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/lib2bit|lib2bit-0.2.1.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< SIC-BUG-ebuild_variables_in_homepages >>> sci-biology/estscan|estscan-3.0.3.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< SIC-IMP-ebuild_insecure_git_uri_usage >>> sci-biology/amos|amos-9999.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< SIC-IMP-ebuild_trailing_whitespaces >>> sci-biology/gatk|gatk-3.8.1.ebuild|sci-biology@gentoo.org sci-biology/gatk|gatk-9999.ebuild|sci-biology@gentoo.org sci-biology/maker|maker-2.31.10.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/seq_crumbs|seq_crumbs-0.1.9.ebuild|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< SRT-BUG-ebuild_missing_zip_dependency >>> sci-biology/Atlas2|Atlas2-1.4.3|http://downloads.sourceforge.net/project/atlas2/Atlas2_v1.4.3.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/beagle|beagle-4.0|http://faculty.washington.edu/browning/beagle/beagle.r1399.src.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/beaglecall|beaglecall-20101115|http://faculty.washington.edu/browning/beaglecall/beaglecall_1.0.1_15Nov10.src.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/beaglecall|beaglecall-20101115|http://faculty.washington.edu/browning/beaglecall/beaglecall_example.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cgview-bin|cgview-bin-20131130|http://www.ualberta.ca/~stothard/downloads/cgview_comparison_tool.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/conform-gt|conform-gt-1174|http://faculty.washington.edu/browning/conform-gt/conform-gt.r1174.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/conrad|conrad-1|http://www.broadinstitute.org/annotation/conrad/conradSrcV1.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/EBARDenovo|EBARDenovo-1.2.2|http://downloads.sourceforge.net/project/ebardenovo/EBARDenovo-1.2.2-20130404.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ensembl-tools|ensembl-tools-86|https://github.com/Ensembl/ensembl-tools/archive/release/86.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/fastqc|fastqc-0.11.3|http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v0.11.3_source.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/genomeview-bin|genomeview-bin-2450|http://downloads.sourceforge.net/project/genomeview/GenomeView/genomeview-2450.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/graf-bin|graf-bin-20171212|http://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/GetZip.cgi?zip_name=GRAF_files.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ICC|ICC-2.0.1|http://indra.mullins.microbiol.washington.edu/cgi-bin/ICC/info.cgi?ID=ICC_v2.0.1.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/IMAGE|IMAGE-2.4.1|http://sourceforge.net/projects/image2/files/IMAGE_version2.4.1_64bit.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/imagej|imagej-1.51k|http://imagej.nih.gov/ij/download/src/ij151k-src.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/imagej|imagej-1.51k|http://wsr.imagej.net/distros/cross-platform/ij150.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/reptile|reptile-1.1|http://aluru-sun.ece.iastate.edu/lib/exe/fetch.php?media=source:reptile-v1.1.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/scaffold_builder|scaffold_builder-20131122-r1|http://sourceforge.net/projects/scaffold-b/files/scaffold_builder_v2.1.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/SnpEff|SnpEff-4.3i|http://sourceforge.net/projects/snpeff/files/snpEff_v4_3i_core.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/SolexaQA|SolexaQA-2.2|http://sourceforge.net/projects/solexaqa/files/src/SolexaQA_v.2.2.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/trim_galore|trim_galore-0.4.0|http://www.bioinformatics.babraham.ac.uk/projects/trim_galore/trim_galore_v0.4.0.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/trimmomatic|trimmomatic-0.38|http://www.usadellab.org/cms/uploads/supplementary/Trimmomatic/Trimmomatic-Src-0.38.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-libs/itk|itk-5.0.1|https://github.com/InsightSoftwareConsortium/ITKGenericLabelInterpolator/archive/187ab99b7d42718c99e5017f0acd3900d7469bd1.zip|maintainer-wanted@gentoo.org:sci-biology@gentoo.org|124241 sci-libs/jhdf5|jhdf5-14.12.1|https://wiki-bsse.ethz.ch/download/attachments/26609237/sis-jhdf5-14.12.1-r33502.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< SRT-BUG-ebuild_src_uri_check >>> dev-python/psubprocess|psubprocess-0.1.2|http://bioinf.comav.upv.es/_downloads/psubprocess-0.1.2.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/aghermann|aghermann-1.1.2|http://alfinston.dlinkddns.com/johnhommer.com/code/aghermann/source/aghermann-1.1.2.tar.xz|johnhommer@gmail.com:sci-biology@gentoo.org sci-biology/ampliconnoise|ampliconnoise-1.27|http://ampliconnoise.googlecode.com/files/AmpliconNoiseV1.27.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ampliconnoise|ampliconnoise-1.27|http://ampliconnoise.googlecode.com/files/DiversityEstimates.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ampliconnoise|ampliconnoise-1.27|http://ampliconnoise.googlecode.com/files/TutorialV1.22.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/argo|argo-1.0.24|http://www.broadinstitute.org/annotation/argo/src/workspace-2008-03-11.tgz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/argo-bin|argo-bin-1.0.31|http://www.broadinstitute.org/annotation/argo/argo.jar|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/argo-bin|argo-bin-2.0.3|http://www.broadinstitute.org/annotation/argo2/releases/argo2.jar|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bambino|bambino-1.02|https://cgwb.nci.nih.gov/cgi-bin/bambino?download_bambino_jar=bundle|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bambino|bambino-1.02|https://cgwb.nci.nih.gov/cgi-bin/bambino?download_bambino_jar=core|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bambino|bambino-1.06|https://cgwb.nci.nih.gov/cgi-bin/bambino?download_bambino_jar=bundle|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/bambino|bambino-1.06|https://cgwb.nci.nih.gov/cgi-bin/bambino?download_bambino_jar=core|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/blue|blue-1.1.2|http://www.bioinformatics.csiro.au/public/files/Changes_for_Blue_1.1.3.pdf|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/blue|blue-1.1.2|http://www.bioinformatics.csiro.au/public/files/Correcting_reads_with_Blue.pdf|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/blue|blue-1.1.2|http://www.bioinformatics.csiro.au/public/files/Linux-1.1.2.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/blue|blue-1.1.3|http://www.bioinformatics.csiro.au/public/files/Changes_for_Blue_1.1.3.pdf|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/blue|blue-1.1.3|http://www.bioinformatics.csiro.au/public/files/Correcting_reads_with_Blue.pdf|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/blue|blue-1.1.3|http://www.bioinformatics.csiro.au/public/files/Linux-1.1.3.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cd-hit-auxtools|cd-hit-auxtools-0.5|http://cdhit.googlecode.com/files/cd-hit-auxtools-v0.5-2012-03-07.tgz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cd-hit-auxtools|cd-hit-auxtools-0.5|http://weizhong-lab.ucsd.edu/cd-hit/wiki/doku.php?id=cd-hit-auxtools-manual|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/cgview-bin|cgview-bin-20131130|http://www.ualberta.ca/~stothard/downloads/cgview_comparison_tool.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/clover|clover-2011.10.24|http://zlab.bu.edu/clover/jaspar2009core|maintainer-wanted@gentoo.org:sci-biology@gentoo.org|142269 sci-biology/clover|clover-2011.10.24|http://zlab.bu.edu/~mfrith/downloads/clover-2011-10-24.tar.gz|maintainer-wanted@gentoo.org:sci-biology@gentoo.org|142269 sci-biology/cnrun|cnrun-2.1.0|http://alfinston.dlinkddns.com/johnhommer.com/code/cnrun/source/cnrun-2.1.0.tar.xz|johnhommer@gmail.com:sci-biology@gentoo.org sci-biology/conrad|conrad-1|http://www.broadinstitute.org/annotation/conrad/conradSrcV1.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/dawg|dawg-1.1.2|http://scit.us/projects/files/dawg/Releases/dawg-1.1.2-release.tar.gz|sci-biology@gentoo.org|230649 sci-biology/est2assembly|est2assembly-1.08|http://est2assembly.googlecode.com/files/est2assembly_1.08.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ESTate|ESTate-0.5|http://www.ebi.ac.uk/~guy/estate/estate.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ESTate|ESTate-0.5|http://www.ebi.ac.uk/~guy/estate/thesis.ps.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/eugene|eugene-4.1d|https://mulcyber.toulouse.inra.fr/frs/download.php/1359/eugene-4.1d.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ffindex|ffindex-0.9.9.6|http://www.splashground.de/~andy/programs/FFindex/ffindex-0.9.9.6.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/fgap|fgap-1.8.1|https://sourceforge.net/projects/fgap/files/fgap.m|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/generecon|generecon-1.2.1-r1|http://www.daimi.au.dk/~mailund/GeneRecon/download/generecon-1.2.1.tar.gz|lucas.chiesa@gmail.com:sci-biology@gentoo.org|128514 sci-biology/germline|germline-1.5.2|http://www.cs.columbia.edu/~gusev/germline/germline-1-5-2.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/gfftools|gfftools-0.98d|http://genome.imim.es/software/gfftools/gff2ps_docs/manual/MANUAL_GFF2PS_v0.96.ps.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/MagicViewer|MagicViewer-1.2.1|http://59.79.168.90/soft/MagicViewer_1.2.1_x86_32_linux.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/MagicViewer|MagicViewer-1.2.1|http://59.79.168.90/soft/MagicViewer_1.2.1_x86_64_linux.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/mavid|mavid-2.0.4|http://bio.math.berkeley.edu/mavid/download/mavid-package-2.0.4.tar.gz|sci-biology@gentoo.org|207250 sci-biology/mira|mira-4.9.5|http://sourceforge.net/projects/mira-assembler/files/MIRA/development/mira-4.9.5.tar.bz2|sci-biology@gentoo.org|585942:144316 sci-biology/mreps|mreps-2.5|http://bioinfo.lifl.fr/mreps/mreps-2.5.tar.gz|sci-biology@gentoo.org|257676 sci-biology/mRNAmarkup|mRNAmarkup-1.0|http://www.brendelgroup.org/bioinformatics2go/Download/mRNAmarkup-10-3-2013.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/MuSeqBox|MuSeqBox-5.4|http://www.brendelgroup.org/bioinformatics2go/Download/MuSeqBox-4-8-2015.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ngs_backbone|ngs_backbone-1.4.0|http://bioinf.comav.upv.es/_downloads/ngs_backbone-1.4.0.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/NGSEPcore|NGSEPcore-3.3.1|https://sourceforge.net/projects/ngsep/files/training/UserManualNGSEP_V330.pdf|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/OBO-Edit|OBO-Edit-2.1.0|http://sourceforge.net/projects/geneontology/files/OBO-Edit%202%20%5BLatest%20versions%5D/OBO-Edit%202.1.0/2-1-0_unix_install4j.sh/download|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/OBO-Edit|OBO-Edit-2.1.1.6|http://downloads.sourceforge.net/project/geneontology/OBO-Edit%202%20%5BLatest%20versions%5D/2.1.1-b6/2-1-1-6_unix_install4j.sh|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/OBO-Edit|OBO-Edit-2.1.1.6|http://sourceforge.net/projects/geneontology/files/OBO-Edit%202%20%5BLatest%20versions%5D/2-1-1-6/ReleaseNotes-2.1.1-b6.txt|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/ORFcor|ORFcor-20130507|http://www.currielab.wisc.edu/files/ORFcor.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/pb-honey|pb-honey-14.1.15|http://sourceforge.net/projects/pb-jelly/files/PBHoney/PBHoney_14.1.15.tgz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/plink|plink-1.90_pre160731|https://www.cog-genomics.org/static/bin/plink160731/plink_src.zip|sci-biology@gentoo.org|589068:595984:689096:689202:725310 sci-biology/plinkseq|plinkseq-0.10|http://psychgen.u.hpc.mssm.edu/plinkseq_downloads/plinkseq-src-latest.tgz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/polyphen|polyphen-2.2.2|http://genetics.bwh.harvard.edu/pph2/dokuwiki/_media/polyphen-2.2.2r405b.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/RADtools|RADtools-1.2.4|https://www.wiki.ed.ac.uk/download/attachments/68630442/RADmanual.pdf|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/RADtools|RADtools-1.2.4|https://www.wiki.ed.ac.uk/download/attachments/68630442/RADtools_1.2.4.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/reptile|reptile-1.1|http://aluru-sun.ece.iastate.edu/lib/exe/fetch.php?media=source:reptile-v1.1.zip|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/skewer-bin|skewer-bin-0.1.104|http://sourceforge.net/projects/skewer/files/Binaries/skewer-0.1.104-linux-x86_64|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/SPAdes|SPAdes-3.13.0|http://spades.bioinf.spbau.ru/release3.11.1/dipspades_manual.html|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/sra_sdk|sra_sdk-2.2.2a|http://ftp-private.ncbi.nlm.nih.gov/sra/sdk/2.2.2a/sra_sdk-2.2.2a.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org sci-biology/tablet-bin|tablet-bin-1.17.08.17|https://ics.hutton.ac.uk/resources/tablet/installers/tablet_linux_x64_1_17_08_17.sh|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org|348029 sci-biology/tablet-bin|tablet-bin-1.17.08.17|https://ics.hutton.ac.uk/resources/tablet/installers/tablet_linux_x86_1_17_08_17.sh|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org|348029 sci-biology/wcd|wcd-0.6.3|http://wcdest.googlecode.com/files/wcd-express-0.6.3.tar.gz|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< TRW-IMP-ebuild_leading_trailing_whitespaces_in_variables >>> sci-biology/proda|proda-1.0.ebuild|IUSE|sci-biology@gentoo.org <<< WWT-BUG-ebuild_homepage_http_statuscode >>> 404|dev-perl/Bio-EnsEMBL|Bio-EnsEMBL-9999|https://metacpan.org/release/Bio-EnsEMBL|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|dev-perl/BTLib|BTLib-0.19|https://metacpan.org/release/BTLib|sci-biology@gentoo.org 000|dev-python/GOGrapher|GOGrapher-9999|https://projects.dbbe.musc.edu/trac/GOGrapher|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|dev-python/opal-client|opal-client-2.4.1|http://www.nbcr.net/data/docs/opal/documentation.html|sci-biology@gentoo.org 000|sci-biology/AlignGraph|AlignGraph-9999|http://bioinformatics.oxfordjournals.org/content/30/12/i319.long|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/arachne|arachne-46233|https://www.broadinstitute.org/crd/wiki|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/bambino|bambino-1.02|https://cgwb.nci.nih.gov/goldenPath/bamview/documentation/bam_utils.html|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/bambino|bambino-1.02|https://cgwb.nci.nih.gov/goldenPath/bamview/documentation/index.html|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/bambino|bambino-1.06|https://cgwb.nci.nih.gov/goldenPath/bamview/documentation/bam_utils.html|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/bambino|bambino-1.06|https://cgwb.nci.nih.gov/goldenPath/bamview/documentation/index.html|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/blue|blue-1.1.2|http://www.bioinformatics.csiro.au/blue|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/blue|blue-1.1.3|http://www.bioinformatics.csiro.au/blue|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/cdbfasta|cdbfasta-0.1|http://compbio.dfci.harvard.edu/tgi/software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/cd-hit-auxtools|cd-hit-auxtools-0.5|http://weizhong-lab.ucsd.edu/cd-hit/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/cd-hit|cd-hit-4.6.5|http://weizhong-lab.ucsd.edu/cd-hit|sci-biology@gentoo.org 000|sci-biology/clover|clover-2011.10.24|http://zlab.bu.edu/clover/|maintainer-wanted@gentoo.org:sci-biology@gentoo.org|142269 000|sci-biology/dawg|dawg-1.1.2|http://scit.us/projects/dawg/|sci-biology@gentoo.org|230649 000|sci-biology/erpin|erpin-5.5b|http://tagc.univ-mrs.fr/erpin/|sci-biology@gentoo.org 000|sci-biology/ffindex|ffindex-0.9.9.6|http://www.splashground.de/~andy/programs/FFindex|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/fgap-bin|fgap-bin-1.8.1|http://www.bioinfo.ufpr.br/fgap|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/fgap|fgap-1.8.1|http://www.bioinfo.ufpr.br/fgap|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/jannovar|jannovar-0.17|http://compbio.charite.de/contao/index.php/jannovar.html|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 403|sci-biology/KaKs_Calculator|KaKs_Calculator-2.0|https://www.sciencedirect.com/science/article/pii/S1672022910600083|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/karect|karect-1.0.0|http://bioinformatics.oxfordjournals.org/content/31/21/3421.abstract|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/MagicViewer|MagicViewer-1.2.1|http://bioinformatics.zj.cn/magicviewer|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/MaSuRCA|MaSuRCA-3.2.2|http://bioinformatics.oxfordjournals.org/content/29/21/2669|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/mavid|mavid-2.0.4|http://baboon.math.berkeley.edu/mavid/|sci-biology@gentoo.org|207250 000|sci-biology/megahit|megahit-9999|http://bioinformatics.oxfordjournals.org/content/31/10/1674.abstract|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/mgblast|mgblast-0.1|http://compbio.dfci.harvard.edu/tgi/software/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/miranda|miranda-3.3a|http://www.microrna.org/|sci-biology@gentoo.org|144316 404|sci-biology/mrsfast|mrsfast-2.6.0.4|http://mrsfast.sourceforge.net/Home|sci-biology@gentoo.org 000|sci-biology/nrcl|nrcl-110625|http://compbio.dfci.harvard.edu/tgi/software/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 403|sci-biology/ParaAT|ParaAT-1.0|https://www.sciencedirect.com/science/article/pii/S0006291X12003518|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 500|sci-biology/prot4EST|prot4EST-3.1b|http://www.compsysbio.org/lab/?q=prot4EST|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/psx|psx-0.1|http://compbio.dfci.harvard.edu/tgi/software/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/pvmsx|pvmsx-0.1|http://compbio.dfci.harvard.edu/tgi/software/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/reptile|reptile-1.1|http://aluru-sun.ece.iastate.edu/doku.php?id=reptile|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/sclust|sclust-0.1|http://compbio.dfci.harvard.edu/tgi/software/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/seqclean|seqclean-110625|http://compbio.dfci.harvard.edu/tgi/software/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/tclust|tclust-110625|http://compbio.dfci.harvard.edu/tgi/software/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/zmsort|zmsort-110625|http://compbio.dfci.harvard.edu/tgi/software/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< WWT-BUG-ebuild_homepage_upstream_shutdown >>> 301|sci-biology/ampliconnoise|ampliconnoise-1.27|http://code.google.com/p/ampliconnoise/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 301|sci-biology/biopieces|biopieces-0.51|http://code.google.com/p/biopieces|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 301|sci-biology/biopieces|biopieces-9999|http://code.google.com/p/biopieces|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 301|sci-biology/CAT|CAT-1.3|http://code.google.com/p/composition-analysis-toolkit|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 301|sci-biology/est2assembly|est2assembly-1.08|http://code.google.com/p/est2assembly/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 301|sci-biology/est2assembly|est2assembly-9999|http://code.google.com/p/est2assembly/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/idba|idba-1.1.1|https://code.google.com/archive/p/hku-idba|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 301|sci-biology/KaKs_Calculator|KaKs_Calculator-1.2|https://code.google.com/p/kaks-calculator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 301|sci-biology/KaKs_Calculator|KaKs_Calculator-2.0|https://code.google.com/p/kaks-calculator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 301|sci-biology/ParaAT|ParaAT-1.0|https://code.google.com/p/paraat|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 301|sci-biology/STAR|STAR-9999|http://code.google.com/p/rna-star/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org|696714:716300 301|sci-biology/wcd|wcd-0.6.3|http://code.google.com/p/wcdest/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< WWT-IMP-ebuild_homepage_301_redirections >>> 200|dev-python/bcbio-gff|https://pypi.python.org/pypi/bcbio-gff|https://pypi.org/project/bcbio-gff/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|dev-python/ngslib|https://pypi.python.org/pypi/ngslib|https://pypi.org/project/ngslib/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|dev-python/py2bit|https://github.com/dpryan79/py2bit|https://github.com/deeptools/py2bit|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|dev-python/pyBigWig|https://github.com/dpryan79/pyBigWig|https://github.com/deeptools/pyBigWig|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|dev-python/pyvcf|https://pypi.python.org/pypi/PyVCF|https://pypi.org/project/PyVCF/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|dev-python/shove|https://pypi.python.org/pypi/shove|https://pypi.org/project/shove/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|dev-python/xopen|https://pypi.python.org/pypi/xopen|https://pypi.org/project/xopen/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/aghermann|http://johnhommer.com/academic/code/aghermann|http://johnhommer.com/academic/code/aghermann/|johnhommer@gmail.com:sci-biology@gentoo.org 200|sci-biology/ampliconnoise|http://code.google.com/p/ampliconnoise/|https://code.google.com/archive/p/ampliconnoise|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/ANGLE-bin|http://bioinformatics.cenargen.embrapa.br/portrait/download|http://bioinformatics.cenargen.embrapa.br/portrait/download/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/angsd|http://www.popgen.dk/angsd|http://www.popgen.dk/angsd/index.php/Main_Page|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/argo-bin|http://www.broadinstitute.org/annotation/argo2|https://www.broadinstitute.org/annotation/argo2|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/argo-bin|http://www.broadinstitute.org/annotation/argo|https://archive.broadinstitute.org/annotation/argo|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/argo|http://www.broadinstitute.org/annotation/argo2|https://www.broadinstitute.org/annotation/argo2|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/argo|http://www.broadinstitute.org/annotation/argo|https://archive.broadinstitute.org/annotation/argo|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/artemis|http://www.sanger.ac.uk/resources/software/artemis|https://www.sanger.ac.uk/science/search-tools-and-software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/autoeditor|http://sourceforge.net/apps/mediawiki/amos/index.php?title=AutoEditor|https://sourceforge.net/projects/amos/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/bambus|http://sourceforge.net/apps/mediawiki/amos/index.php?title=AMOS|https://sourceforge.net/projects/amos/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/bambus|http://www.tigr.org/software/bambus|https://www.jcvi.org/cms/research/software/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/biopieces|http://code.google.com/p/biopieces|https://code.google.com/archive/p/biopieces|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/blat|http://www.cse.ucsc.edu/~kent/|https://users.soe.ucsc.edu/~kent/|sci-biology@gentoo.org 404|sci-biology/caftools|http://www.sanger.ac.uk/resources/software/caf|https://www.sanger.ac.uk/science/search-tools-and-software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/CAT|http://code.google.com/p/composition-analysis-toolkit|https://code.google.com/archive/p/composition-analysis-toolkit|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/cd-hit|http://weizhongli-lab.org/cd-hit|http://weizhongli-lab.org/cd-hit/|sci-biology@gentoo.org 200|sci-biology/cegma|http://korflab.ucdavis.edu/datasets/cegma|http://korflab.ucdavis.edu/datasets/cegma/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/cg-cat|http://bibiserv.techfak.uni-bielefeld.de/cgcat|https://bibiserv.cebitec.uni-bielefeld.de/cgcat|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/cgview-bin|http://stothard.afns.ualberta.ca/downloads/CCT|http://stothard.afns.ualberta.ca/downloads/CCT/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/cluster|http://bonsai.hgc.jp/~mdehoon/software/cluster|http://bonsai.hgc.jp/~mdehoon/software/cluster/|je_fro@gentoo.org:sci-biology@gentoo.org 200|sci-biology/cnrun|http://johnhommer.com/academic/code/cnrun|http://johnhommer.com/academic/code/cnrun/|johnhommer@gmail.com:sci-biology@gentoo.org 200|sci-biology/conifer|http://conifer.sf.net|http://conifer.sourceforge.net/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/conrad|http://www.broadinstitute.org/annotation/conrad|https://www.broadinstitute.org/annotation/conrad|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/cross_genome|http://www.sanger.ac.uk/science/tools/crossgenome|https://www.sanger.ac.uk/tool/crossgenome/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/deeptools|https://github.com/fidelram/deepTools|https://github.com/deeptools/deepTools|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/diamond|http://ab.inf.uni-tuebingen.de/software/diamond|https://www.wsi.uni-tuebingen.de/lehrstuehle/algorithms-in-bioinformatics/software/diamond/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/EBARDenovo|http://ebardenovo.sourceforge.net|https://sourceforge.net/projects/ebardenovo/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/ensembl-tools|http://www.ensembl.org/info/docs/tools/vep/script|http://www.ensembl.org/info/docs/tools/vep/script/index.html|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 410|sci-biology/ePCR|http://www.ncbi.nlm.nih.gov/tools/epcr/|https://www.ncbi.nlm.nih.gov/tools/epcr/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 500|sci-biology/est2assembly|http://code.google.com/p/est2assembly/|http://code.google.com/p/est2assembly/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/ESTate|http://www.ebi.ac.uk/~guy/estate|https://www.ebi.ac.uk/~guy/estate|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/eugene|http://www.inra.fr/mia/T/EuGene/|https://www.inrae.fr/mia/T/EuGene/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/eval|http://mblab.wustl.edu/software.html|https://mblab.wustl.edu/software.html|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/exomiser-bin|http://www.sanger.ac.uk/science/tools/exomiser|https://www.sanger.ac.uk/tool/exomiser/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/fastdnaml|http://directory.fsf.org/project/fastDNAml/|https://directory.fsf.org/wiki/FastDNAml|sci-biology@gentoo.org 404|sci-biology/gap2caf|http://www.sanger.ac.uk/resources/software/caf/|https://www.sanger.ac.uk/science/search-tools-and-software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/gatk|http://www.broadinstitute.org/gsa/wiki/index.php/The_Genome_Analysis_Toolkit|https://gatk.broadinstitute.org/hc/en-us|sci-biology@gentoo.org 200|sci-biology/gemini|http://gemini.readthedocs.org/en/latest|https://gemini.readthedocs.io/en/latest/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/geneid|http://genome.crg.es/software/geneid|https://genome.crg.cat/software/geneid|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/generecon|http://www.daimi.au.dk/~mailund/GeneRecon/|https://users-cs.au.dk/~mailund/GeneRecon/|lucas.chiesa@gmail.com:sci-biology@gentoo.org 200|sci-biology/germline|http://www.cs.columbia.edu/~gusev/germline|http://www.cs.columbia.edu/~gusev/germline/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/gfftools|http://genome.crg.es/software/gfftools/GFF2PS.html|https://genome.crg.cat/software/gfftools/GFF2PS.html|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/hexamer|http://www.sanger.ac.uk/resources/software|https://www.sanger.ac.uk/science/tools/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/igv|http://www.broadinstitute.org/igv/|http://software.broadinstitute.org/software/igv/|sci-biology@gentoo.org 200|sci-biology/IMAGE|https://sourceforge.net/apps/mediawiki/image2|https://sourceforge.net/projects/image2/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/imagej|http://rsb.info.nih.gov/ij/|https://imagej.nih.gov/ij/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/jannovar-bin|http://compbio.charite.de|http://charite.github.io/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/KaKs_Calculator|https://code.google.com/p/kaks-calculator|https://code.google.com/archive/p/kaks-calculator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/khmer|https://github.com/ged-lab/khmer|https://github.com/dib-lab/khmer|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/kraken|http://genomebiology.com/2014/15/3/R46|https://genomebiology.biomedcentral.com/articles/10.1186/gb-2014-15-3-r46|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/manatee-igs|http://manatee.sourceforge.net/igs|http://manatee.sourceforge.net/igs/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/merlin|http://www.sph.umich.edu/csg/abecasis/Merlin/|http://csg.sph.umich.edu/abecasis/Merlin/|sci-biology@gentoo.org 200|sci-biology/MeV|http://mev-tm4.sourceforge.net|https://sourceforge.net/projects/mev-tm4/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/MochiView|http://johnsonlab.ucsf.edu/mochi.html|http://www.johnsonlab.ucsf.edu/mochi.html|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/mothur|http://www.mothur.org/|http://mothur.org/|sci-biology@gentoo.org 200|sci-biology/msautil|http://bioresearch.byu.edu/msa|http://bioresearch.byu.edu/msa/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 400|sci-biology/ncbi-blast+|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|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 400|sci-biology/ncbi-tools++|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 200|sci-biology/nwalign|https://pypi.python.org/pypi/nwalign|https://pypi.org/project/nwalign/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/OBO-Edit|http://www.oboedit.org/|http://oboedit.org/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/ParaAT|http://cbb.big.ac.cn/software|http://cbb.big.ac.cn/Software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/ParaAT|https://code.google.com/p/paraat|https://code.google.com/archive/p/paraat|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/phusion2|http://www.sanger.ac.uk/resources/software/phusion/|https://www.sanger.ac.uk/science/search-tools-and-software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/phusion|http://www.sanger.ac.uk/resources/software/phusion/|https://www.sanger.ac.uk/science/search-tools-and-software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/pileup|http://www.sanger.ac.uk/resources/software/ssaha2/|https://www.sanger.ac.uk/science/search-tools-and-software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/portrait|http://bioinformatics.cenargen.embrapa.br/portrait|http://bioinformatics.cenargen.embrapa.br/portrait/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/prot4EST|http://www.biomedcentral.com/1471-2105/5/187|https://bmcbioinformatics.biomedcentral.com/articles/10.1186/1471-2105-5-187|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/pyfaidx|https://pypi.python.org/pypi/pyfaidx|https://pypi.org/project/pyfaidx/|mschu.dev@gmail.com:sci-biology@gentoo.org 200|sci-biology/pysamstats|https://pypi.python.org/pypi/pysamstats|https://pypi.org/project/pysamstats/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/quicktree|http://www.sanger.ac.uk/Software/analysis/quicktree/|https://www.sanger.ac.uk/science/search-tools-and-software|sci-biology@gentoo.org 200|sci-biology/reapr|http://www.sanger.ac.uk/science/tools/reapr|https://www.sanger.ac.uk/tool/reapr/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/Scaffolder-evaluation|http://genomebiology.com/2014/15/3/R42|https://genomebiology.biomedcentral.com/articles/10.1186/gb-2014-15-3-r42|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/screed|http://github.com/ged-lab/screed/|https://github.com/dib-lab/screed|sci-biology@gentoo.org 200|sci-biology/screed|https://pypi.python.org/pypi/screed|https://pypi.org/project/screed/|sci-biology@gentoo.org 200|sci-biology/seqtools|http://www.sanger.ac.uk/resources/software/seqtools|https://www.sanger.ac.uk/tool/seqtools/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/sgp2|http://genome.crg.es/software/sgp2/|https://genome.crg.cat/software/sgp2/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/smalt-bin|http://www.sanger.ac.uk/resources/software/smalt/|https://www.sanger.ac.uk/science/search-tools-and-software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/smalt|http://www.sanger.ac.uk/resources/software/smalt/|https://www.sanger.ac.uk/science/search-tools-and-software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/snphylo|http://chibba.pgml.uga.edu/snphylo|http://chibba.pgml.uga.edu/snphylo/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/SPAdes|http://cab.spbu.ru/software/spades|http://cab.spbu.ru/software/spades/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 404|sci-biology/ssaha2-bin|http://www.sanger.ac.uk/resources/software/ssaha2|https://www.sanger.ac.uk/science/search-tools-and-software|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/STAR|http://code.google.com/p/rna-star/|https://code.google.com/archive/p/rna-star|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-biology/tagdust|http://genome.gsc.riken.jp/osc/english/dataresource|http://genome.gsc.riken.jp/osc/english/dataresource/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 000|sci-biology/twinscan|http://mblab.wustl.edu/software/twinscan|https://mblab.wustl.edu/software/twinscan|sci-biology@gentoo.org 200|sci-biology/wcd|http://code.google.com/p/wcdest/|https://code.google.com/archive/p/wcdest|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 200|sci-libs/itk|http://www.itk.org|https://itk.org/|maintainer-wanted@gentoo.org:sci-biology@gentoo.org <<< WWT-IMP-ebuild_homepage_redirection_http_to_https >>> 6|sci-biology/act-bin|http://www.sanger.ac.uk/science/tools/artemis-comparison-tool-act|https://www.sanger.ac.uk/science/tools/artemis-comparison-tool-act/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/align_to_scf|http://genome.imb-jena.de/software/roche454ace2caf|https://genome.imb-jena.de/software/roche454ace2caf/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/amos|http://sourceforge.net/projects/amos|https://sourceforge.net/projects/amos|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/augustus|http://bioinf.uni-greifswald.de/augustus|https://bioinf.uni-greifswald.de/augustus/|sci-biology@gentoo.org 5|sci-biology/bambus|http://sourceforge.net/projects/amos/files/bambus|https://sourceforge.net/projects/amos/files/bambus|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/BBmap|http://sourceforge.net/projects/bbmap/|https://sourceforge.net/projects/bbmap/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/BRAKER|http://bioinf.uni-greifswald.de/augustus/downloads|https://bioinf.uni-greifswald.de/augustus/downloads/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/BRAKER|http://bioinf.uni-greifswald.de/bioinf/braker|https://bioinf.uni-greifswald.de/bioinf/braker/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/breakdancer|http://gmt.genome.wustl.edu/packages/breakdancer|https://gmt.genome.wustl.edu/packages/breakdancer/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/caftools|http://www.ncbi.nlm.nih.gov/pmc/articles/PMC310697|https://www.ncbi.nlm.nih.gov/pmc/articles/PMC310697/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/conrad|http://sourceforge.net/projects/conradcrf|https://sourceforge.net/projects/conradcrf|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/cramtools|http://www.ebi.ac.uk/ena/software/cram-toolkit|https://www.ebi.ac.uk/ena/software/cram-toolkit|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/estscan|http://sourceforge.net/projects/estscan/|https://sourceforge.net/projects/estscan/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/FLASH|http://sourceforge.net/projects/flashpage|https://sourceforge.net/projects/flashpage|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/full_lengther_next|http://www.rubydoc.info/gems/full_lengther_next|https://www.rubydoc.info/gems/full_lengther_next|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/genepop|http://genepop.curtin.edu.au/|https://genepop.curtin.edu.au/|sci-biology@gentoo.org 5|sci-biology/genepop|http://kimura.univ-montp2.fr/~rousset/Genepop.htm|https://kimura.univ-montp2.fr/~rousset/Genepop.htm|sci-biology@gentoo.org 5|sci-biology/glean|http://sourceforge.net/projects/glean-gene|https://sourceforge.net/projects/glean-gene|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/graf-bin|http://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/Software.cgi|https://www.ncbi.nlm.nih.gov/projects/gap/cgi-bin/Software.cgi|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/grappa|http://www.cs.unm.edu/~moret/GRAPPA/|https://www.cs.unm.edu/~moret/GRAPPA/|sci-biology@gentoo.org 5|sci-biology/InterMine|http://github.com/intermine/intermine|https://github.com/intermine/intermine|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/jellyfish|http://www.cbcb.umd.edu/software/jellyfish|https://www.cbcb.umd.edu/software/jellyfish/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/jigsaw|http://www.cbcb.umd.edu/software/jigsaw|https://www.cbcb.umd.edu/software/jigsaw/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/KING|http://people.virginia.edu/~wc9c/KING|https://people.virginia.edu/~wc9c/KING/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/kraken|http://ccb.jhu.edu/software/kraken|https://ccb.jhu.edu/software/kraken/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/metaseq|http://pythonhosted.org/metaseq/|https://pythonhosted.org/metaseq/|mschu.dev@gmail.com:sci-biology@gentoo.org 5|sci-biology/oases|http://www.ebi.ac.uk/~zerbino/oases|https://www.ebi.ac.uk/~zerbino/oases/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/ORFcor|http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0058387|https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0058387|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/parafly|http://sourceforge.net/projects/transdecoder/|https://sourceforge.net/projects/transdecoder/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/perga|http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4252104|https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4252104/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/picard|http://broadinstitute.github.io/picard|https://broadinstitute.github.io/picard/|ercpe@gentoo.org:sci-biology@gentoo.org 5|sci-biology/plinkseq|http://atgu.mgh.harvard.edu/plinkseq|https://atgu.mgh.harvard.edu/plinkseq/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/pybedtools|http://pythonhosted.org/pybedtools/|https://pythonhosted.org/pybedtools/|mschu.dev@gmail.com:sci-biology@gentoo.org 5|sci-biology/reaper|http://www.ebi.ac.uk/~stijn/reaper|https://www.ebi.ac.uk/~stijn/reaper/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/sambamba|http://lomereiter.github.io/sambamba|https://lomereiter.github.io/sambamba/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/scaffold_builder|http://edwards.sdsu.edu/scaffold_builder|https://edwards.sdsu.edu/scaffold_builder/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/scaffold_builder|http://sourceforge.net/projects/scaffold-b|https://sourceforge.net/projects/scaffold-b|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/skewer-bin|http://sourceforge.net/projects/skewer|https://sourceforge.net/projects/skewer|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/SOAPdenovo2|http://gigascience.biomedcentral.com/articles/10.1186/2047-217X-1-18|https://gigascience.biomedcentral.com/articles/10.1186/2047-217X-1-18|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/SolexaQA|http://sourceforge.net/projects/clview|https://sourceforge.net/projects/clview|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/sra_sdk|http://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?cmd=show&f=faspftp_runs_v1&m=downloads&s=download_sra|https://trace.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?cmd=show&f=faspftp_runs_v1&m=downloads&s=download_sra|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/staden_doc|http://sourceforge.net/projects/staden|https://sourceforge.net/projects/staden|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/staden|http://sourceforge.net/projects/staden/|https://sourceforge.net/projects/staden/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/staden|http://sourceforge.net/projects/staden|https://sourceforge.net/projects/staden|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/trim_galore|http://www.bioinformatics.babraham.ac.uk/projects/trim_galore|https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/trowel|http://sourceforge.net/projects/trowel-ec|https://sourceforge.net/projects/trowel-ec|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/wgs-assembler|http://sourceforge.net/projects/wgs-assembler/|https://sourceforge.net/projects/wgs-assembler/|sci-biology@gentoo.org 5|sci-biology/wgs_tools|http://www.ncbi.nlm.nih.gov/books/NBK279690/|https://www.ncbi.nlm.nih.gov/books/NBK279690/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/wgs_tools|http://www.ncbi.nlm.nih.gov/genbank/wgs|https://www.ncbi.nlm.nih.gov/genbank/wgs/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 5|sci-biology/wise|http://www.ebi.ac.uk/~birney/wise2|https://www.ebi.ac.uk/~birney/wise2/|sci-biology@gentoo.org 7|sci-biology/zmap|http://www.sanger.ac.uk/science/tools/zmap|https://www.sanger.ac.uk/science/tools/zmap/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< WWT-IMP-ebuild_homepage_redirection_missing_slash_www >>> 6|sci-biology/hisat2|https://ccb.jhu.edu/software/hisat2|https://ccb.jhu.edu/software/hisat2/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/nextclip|https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3928519|https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3928519/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/stringtie|https://ccb.jhu.edu/software/stringtie|https://ccb.jhu.edu/software/stringtie/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 6|sci-biology/tablet-bin|https://ics.hutton.ac.uk/tablet|https://ics.hutton.ac.uk/tablet/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 7|sci-biology/tablet|https://ics.hutton.ac.uk/tablet|https://ics.hutton.ac.uk/tablet/|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org <<< WWT-IMP-ebuild_homepage_unsync >>> 2|sci-biology/amos|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 2|sci-biology/bowtie|sci-biology@gentoo.org 2|sci-biology/genepop|sci-biology@gentoo.org 2|sci-biology/idba|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 2|sci-biology/jellyfish|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 2|sci-biology/jtreeview|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 2|sci-biology/KaKs_Calculator|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org 2|sci-biology/staden|mmokrejs@fold.natur.cuni.cz:sci-biology@gentoo.org