diff options
Diffstat (limited to 'sci-biology')
39 files changed, 39 insertions, 39 deletions
diff --git a/sci-biology/beagle/beagle-4.0.ebuild b/sci-biology/beagle/beagle-4.0.ebuild index 70caec74e..c3702657c 100644 --- a/sci-biology/beagle/beagle-4.0.ebuild +++ b/sci-biology/beagle/beagle-4.0.ebuild @@ -6,7 +6,7 @@ EAPI=5 inherit java-pkg-2 java-ant-2 -DESCRIPTION="Genotype calling/phasing, imputation of ungenotyped markers, identity-by-descent segment detection" +DESCRIPTION="Genotype calling/phasing, imputation of ungenotyped markers" HOMEPAGE="http://faculty.washington.edu/browning/beagle/beagle.html" SRC_URI="http://faculty.washington.edu/browning/beagle/beagle.r1399.src.zip http://faculty.washington.edu/browning/beagle/beagle.03Mar15.pdf diff --git a/sci-biology/bismark/bismark-0.13.0.ebuild b/sci-biology/bismark/bismark-0.13.0.ebuild index 1f6616e1e..64f06c0c0 100644 --- a/sci-biology/bismark/bismark-0.13.0.ebuild +++ b/sci-biology/bismark/bismark-0.13.0.ebuild @@ -6,7 +6,7 @@ EAPI=5 inherit toolchain-funcs -DESCRIPTION="A tool to map bisulfite converted sequence reads and determine cytosine methylation states" +DESCRIPTION="Map bisulfite converted sequence reads and determine cytosine methylation states" HOMEPAGE="http://www.bioinformatics.babraham.ac.uk/projects/bismark/" SRC_URI="http://www.bioinformatics.babraham.ac.uk/projects/${PN}/${PN}_v${PV}.tar.gz" diff --git a/sci-biology/blue/blue-1.1.2.ebuild b/sci-biology/blue/blue-1.1.2.ebuild index 4591d3c02..efb34809e 100644 --- a/sci-biology/blue/blue-1.1.2.ebuild +++ b/sci-biology/blue/blue-1.1.2.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="Error corrector for Illummina and Roche/454 able to also fix insertions and deletions" +DESCRIPTION="Error corrector for Illummina and Roche/454, inculding insertions and deletions" HOMEPAGE="http://www.bioinformatics.csiro.au/blue" SRC_URI=" http://www.bioinformatics.csiro.au/public/files/Linux-${PV}.tar.gz -> ${P}.tar.gz diff --git a/sci-biology/blue/blue-1.1.3.ebuild b/sci-biology/blue/blue-1.1.3.ebuild index 4591d3c02..59561cc13 100644 --- a/sci-biology/blue/blue-1.1.3.ebuild +++ b/sci-biology/blue/blue-1.1.3.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="Error corrector for Illummina and Roche/454 able to also fix insertions and deletions" +DESCRIPTION="Error corrector for Illummina and Roche/454, including insertions and deletions" HOMEPAGE="http://www.bioinformatics.csiro.au/blue" SRC_URI=" http://www.bioinformatics.csiro.au/public/files/Linux-${PV}.tar.gz -> ${P}.tar.gz diff --git a/sci-biology/cdbfasta/cdbfasta-0.1.ebuild b/sci-biology/cdbfasta/cdbfasta-0.1.ebuild index 06cc24366..1dcd7f6cd 100644 --- a/sci-biology/cdbfasta/cdbfasta-0.1.ebuild +++ b/sci-biology/cdbfasta/cdbfasta-0.1.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="FASTA record indexing/retrievieng utility, a part of TIGR Gene Indices project tools" +DESCRIPTION="FASTA record indexing/retrievieng utility" HOMEPAGE="http://compbio.dfci.harvard.edu/tgi/software" SRC_URI="ftp://occams.dfci.harvard.edu/pub/bio/tgi/software/cdbfasta/cdbfasta.tar.gz" diff --git a/sci-biology/cortex_var/cortex_var-1.0.5.21.ebuild b/sci-biology/cortex_var/cortex_var-1.0.5.21.ebuild index 10f36ce00..c582526d6 100644 --- a/sci-biology/cortex_var/cortex_var-1.0.5.21.ebuild +++ b/sci-biology/cortex_var/cortex_var-1.0.5.21.ebuild @@ -7,7 +7,7 @@ EAPI=5 PERL_EXPORT_PHASE_FUNCTIONS=no inherit perl-module eutils toolchain-funcs -DESCRIPTION="Assemble and compare genotype variants (variant discovery without reference sequence)" +DESCRIPTION="Genotype variant discovery without reference sequence" HOMEPAGE="http://cortexassembler.sourceforge.net/index_cortex_var.html" SRC_URI="http://sourceforge.net/projects/cortexassembler/files/cortex_var/latest/CORTEX_release_v1.0.5.21.tgz http://cortexassembler.sourceforge.net/cortex_var_user_manual.pdf" diff --git a/sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild b/sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild index 1346fd2ee..fa60ef700 100644 --- a/sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild +++ b/sci-biology/exomiser-bin/exomiser-bin-7.2.1.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="Annotate VCF files and prioritize genome/exome mutations (Jannovar, UCSC KnownGenes, hg19)" +DESCRIPTION="Annotate VCF files and prioritize genome/exome mutations" HOMEPAGE="http://www.sanger.ac.uk/science/tools/exomiser" SRC_URI="ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/exomiser-cli-${PV}-distribution.zip ftp://ftp.sanger.ac.uk/pub/resources/software/exomiser/downloads/exomiser/GenomiserREADME -> ${PN}.README diff --git a/sci-biology/fastqc/fastqc-0.11.3.ebuild b/sci-biology/fastqc/fastqc-0.11.3.ebuild index 64b41ab63..f558a751a 100644 --- a/sci-biology/fastqc/fastqc-0.11.3.ebuild +++ b/sci-biology/fastqc/fastqc-0.11.3.ebuild @@ -6,7 +6,7 @@ EAPI=5 inherit java-pkg-2 eutils java-ant-2 -DESCRIPTION="Perl-based wrapper around java apps to quality control FASTA/FASTQ sequence files" +DESCRIPTION="Quality control FASTA/FASTQ sequence files" HOMEPAGE="http://www.bioinformatics.babraham.ac.uk/projects/fastqc/" SRC_URI="http://www.bioinformatics.babraham.ac.uk/projects/fastqc/fastqc_v"${PV}"_source.zip" diff --git a/sci-biology/generecon/generecon-1.2.1-r1.ebuild b/sci-biology/generecon/generecon-1.2.1-r1.ebuild index d3c8acbff..81c81baf0 100644 --- a/sci-biology/generecon/generecon-1.2.1-r1.ebuild +++ b/sci-biology/generecon/generecon-1.2.1-r1.ebuild @@ -6,7 +6,7 @@ EAPI=5 inherit autotools eutils -DESCRIPTION="Disequilibrium gene mapping based on coalescent theory using Bayesian Markov Chain MC methods" +DESCRIPTION="Disequilibrium gene mapping based on coalescent theory using Bayesian MC methods" HOMEPAGE="http://www.daimi.au.dk/~mailund/GeneRecon/" SRC_URI="http://www.daimi.au.dk/~mailund/GeneRecon/download/${P}.tar.gz" diff --git a/sci-biology/genometools/genometools-1.5.7.ebuild b/sci-biology/genometools/genometools-1.5.7.ebuild index b62bfe1ab..2a78a5ce9 100644 --- a/sci-biology/genometools/genometools-1.5.7.ebuild +++ b/sci-biology/genometools/genometools-1.5.7.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="A collection of tools for bioinformatics (notably Tallymer, Readjoiner, gff3validator)" +DESCRIPTION="Tools for bioinformatics (notably Tallymer, Readjoiner, gff3validator)" HOMEPAGE="http://genometools.org" SRC_URI="http://genometools.org/pub/${P}.tar.gz" diff --git a/sci-biology/genseed/genseed-1.0.22.ebuild b/sci-biology/genseed/genseed-1.0.22.ebuild index 92b1812c3..70919b8fe 100644 --- a/sci-biology/genseed/genseed-1.0.22.ebuild +++ b/sci-biology/genseed/genseed-1.0.22.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="Seed-driven progressive assembly program using legacy NCBI blast, CAP3, and optionally cross_match" +DESCRIPTION="Seed-driven progressive assembly program" HOMEPAGE="http://www.coccidia.icb.usp.br/genseed/" SRC_URI="http://www.coccidia.icb.usp.br/genseed/download/${P}.tar.gz" diff --git a/sci-biology/hydra-sv/hydra-sv-0.5.3.ebuild b/sci-biology/hydra-sv/hydra-sv-0.5.3.ebuild index ba64ab2bf..01305784c 100644 --- a/sci-biology/hydra-sv/hydra-sv-0.5.3.ebuild +++ b/sci-biology/hydra-sv/hydra-sv-0.5.3.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="Detection of structural variation breakpoints in unique and duplicated genomic regions" +DESCRIPTION="Detection of structural variation breakpoints" HOMEPAGE="http://code.google.com/p/hydra-sv/" SRC_URI="http://hydra-sv.googlecode.com/files/Hydra.v${PV}.tar.gz" diff --git a/sci-biology/kmergenie/kmergenie-1.6971.ebuild b/sci-biology/kmergenie/kmergenie-1.6971.ebuild index ef96c0af7..6762ecddf 100644 --- a/sci-biology/kmergenie/kmergenie-1.6971.ebuild +++ b/sci-biology/kmergenie/kmergenie-1.6971.ebuild @@ -8,7 +8,7 @@ inherit eutils PYTHON_COMPAT=( python{2_6,2_7} ) -DESCRIPTION="Estimate best k-mer length to be used in novo assemblies (default set during compilation is 121)" +DESCRIPTION="Estimate best k-mer length to be used in novo assemblies" HOMEPAGE="http://kmergenie.bx.psu.edu/" SRC_URI="http://kmergenie.bx.psu.edu/"${P}".tar.gz" diff --git a/sci-biology/lastz/lastz-1.03.66.ebuild b/sci-biology/lastz/lastz-1.03.66.ebuild index a3b2ae138..99d9c22f7 100644 --- a/sci-biology/lastz/lastz-1.03.66.ebuild +++ b/sci-biology/lastz/lastz-1.03.66.ebuild @@ -6,7 +6,7 @@ EAPI=5 inherit eutils flag-o-matic toolchain-funcs -DESCRIPTION="A pairwise DNA sequence aligner (also chromosome to chromosome), a BLASTZ replacement" +DESCRIPTION="A pairwise DNA sequence aligner, a BLASTZ replacement" HOMEPAGE="http://www.bx.psu.edu/~rsharris/lastz/" SRC_URI="http://www.bx.psu.edu/~rsharris/lastz/newer/${P}.tar.gz" diff --git a/sci-biology/manatee-jcvi/manatee-jcvi-2.4.3.ebuild b/sci-biology/manatee-jcvi/manatee-jcvi-2.4.3.ebuild index 5701bb8d2..59c098db0 100644 --- a/sci-biology/manatee-jcvi/manatee-jcvi-2.4.3.ebuild +++ b/sci-biology/manatee-jcvi/manatee-jcvi-2.4.3.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="genome annotation tool: view, modify, and store annotation for prokaryotic and eukaryotic genomes" +DESCRIPTION="Genome annotation tool" HOMEPAGE="http://manatee.sourceforge.net/jcvi/downloads.shtml" SRC_URI="http://downloads.sourceforge.net/project/manatee/manatee/manatee-2.4.3/manatee-2.4.3.tgz" diff --git a/sci-biology/mgblast/mgblast-0.1.ebuild b/sci-biology/mgblast/mgblast-0.1.ebuild index 0a95c2e09..011471353 100644 --- a/sci-biology/mgblast/mgblast-0.1.ebuild +++ b/sci-biology/mgblast/mgblast-0.1.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="Customized version of megablast from TIGR Gene Indices project used by tgicl and gicl utilities" +DESCRIPTION="Customized version of megablast from TIGR Gene Indices project" HOMEPAGE="http://compbio.dfci.harvard.edu/tgi/software/" SRC_URI="ftp://occams.dfci.harvard.edu/pub/bio/tgi/software/tgicl/mgblast.tar.gz" diff --git a/sci-biology/mira/mira-4.9.5.ebuild b/sci-biology/mira/mira-4.9.5.ebuild index c77a962c6..268d60779 100644 --- a/sci-biology/mira/mira-4.9.5.ebuild +++ b/sci-biology/mira/mira-4.9.5.ebuild @@ -9,7 +9,7 @@ MY_PV="${PV/_}" # convert from mira-4.0_rc2 (Gentoo ebuild filename derived) to inherit autotools eutils multilib -DESCRIPTION="Whole Genome Shotgun and EST Sequence Assembler for Sanger, 454 and Solexa / Illumina" +DESCRIPTION="Whole Genome Shotgun and EST Sequence Assembler" HOMEPAGE="http://www.chevreux.org/projects_mira.html" SRC_URI=" http://sourceforge.net/projects/mira-assembler/files/MIRA/development/"${PN}"-"${MY_PV}".tar.bz2 diff --git a/sci-biology/ngsview/ngsview-0.91.ebuild b/sci-biology/ngsview/ngsview-0.91.ebuild index 8d46197d8..863bf10ce 100644 --- a/sci-biology/ngsview/ngsview-0.91.ebuild +++ b/sci-biology/ngsview/ngsview-0.91.ebuild @@ -6,7 +6,7 @@ EAPI=5 inherit qt4-r2 -DESCRIPTION="Display, edit next-gen sequence alignment (BED, BLAST, Eland, mapview processed MAQ, Corona formats)" +DESCRIPTION="Display, edit NGS alignments" HOMEPAGE="http://sourceforge.net/projects/ngsview" SRC_URI="mirror://sourceforge/projects/${PN}/files/${PN}/${P}.tar.gz" diff --git a/sci-biology/perlprimer/perlprimer-1.1.21.ebuild b/sci-biology/perlprimer/perlprimer-1.1.21.ebuild index e6f00dcae..235a0ab86 100644 --- a/sci-biology/perlprimer/perlprimer-1.1.21.ebuild +++ b/sci-biology/perlprimer/perlprimer-1.1.21.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="GUI application written in Perl to design primers for standard PCR, bisulphite PCR and Real-time PCR" +DESCRIPTION="Primers design for standard PCR, bisulphite PCR and Real-time PCR" HOMEPAGE="http://perlprimer.sourceforge.net/" SRC_URI="mirror://sourceforge/${PN}/${P}.tar.bz2" diff --git a/sci-biology/pileup/pileup-0.6.ebuild b/sci-biology/pileup/pileup-0.6.ebuild index 77322f471..260ad8a53 100644 --- a/sci-biology/pileup/pileup-0.6.ebuild +++ b/sci-biology/pileup/pileup-0.6.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="SSAHA2-based pipeline to align reads into format also understood by samtools, maq" +DESCRIPTION="SSAHA2-based pipeline to align reads" HOMEPAGE="http://www.sanger.ac.uk/resources/software/ssaha2/" SRC_URI="ftp://ftp.sanger.ac.uk/pub4/resources/software/ssaha2/pileup.tgz" diff --git a/sci-biology/roche454ace2caf/roche454ace2caf-20100812.ebuild b/sci-biology/roche454ace2caf/roche454ace2caf-20100812.ebuild index 4b6f6450b..df1a0926e 100644 --- a/sci-biology/roche454ace2caf/roche454ace2caf-20100812.ebuild +++ b/sci-biology/roche454ace2caf/roche454ace2caf-20100812.ebuild @@ -4,7 +4,7 @@ EAPI=6 -DESCRIPTION="Convert from ace to gap4 (of staden v1.x), not needed to convert ace for gap5 of staden v2" +DESCRIPTION="ace to gap4 converter" HOMEPAGE="http://genome.imb-jena.de/software/roche454ace2caf" SRC_URI="http://genome.imb-jena.de/software/roche454ace2caf/download/src/roche454ace2gap-2010-12-08.tgz" diff --git a/sci-biology/samstat/samstat-20130708.ebuild b/sci-biology/samstat/samstat-20130708.ebuild index 61c41352b..bfd17cdef 100644 --- a/sci-biology/samstat/samstat-20130708.ebuild +++ b/sci-biology/samstat/samstat-20130708.ebuild @@ -6,7 +6,7 @@ EAPI=5 inherit eutils -DESCRIPTION="Show statistics of BAM/SAM (error profiles, nucleotide composition, base quals, len. distribution)" +DESCRIPTION="Statistics of BAM/SAM files" HOMEPAGE="http://samstat.sourceforge.net" SRC_URI="http://sourceforge.net/projects/samstat/files/samstat.tgz" diff --git a/sci-biology/samtools/samtools-1.0-r2.ebuild b/sci-biology/samtools/samtools-1.0-r2.ebuild index b10e681e1..4c854101f 100644 --- a/sci-biology/samtools/samtools-1.0-r2.ebuild +++ b/sci-biology/samtools/samtools-1.0-r2.ebuild @@ -8,7 +8,7 @@ PYTHON_COMPAT=( python2_7 ) inherit eutils multilib python-r1 toolchain-funcs -DESCRIPTION="Utilities for SAM (Sequence Alignment/Map), a format for large nucleotide sequence alignments" +DESCRIPTION="Utilities for SAM (Sequence Alignment/Map)" HOMEPAGE="http://www.htslib.org/" SRC_URI="mirror://sourceforge/${PN}/${P}.tar.bz2" diff --git a/sci-biology/samtools/samtools-1.1-r1.ebuild b/sci-biology/samtools/samtools-1.1-r1.ebuild index 99411568b..5932f8dd9 100644 --- a/sci-biology/samtools/samtools-1.1-r1.ebuild +++ b/sci-biology/samtools/samtools-1.1-r1.ebuild @@ -8,7 +8,7 @@ PYTHON_COMPAT=( python2_7 ) inherit eutils multilib python-r1 toolchain-funcs -DESCRIPTION="Utilities for SAM (Sequence Alignment/Map), a format for large nucleotide sequence alignments" +DESCRIPTION="Utilities for SAM (Sequence Alignment/Map)" HOMEPAGE="http://www.htslib.org/" SRC_URI="mirror://sourceforge/${PN}/${P}.tar.bz2" diff --git a/sci-biology/samtools/samtools-1.2-r1.ebuild b/sci-biology/samtools/samtools-1.2-r1.ebuild index dcbd07b69..87d702bf0 100644 --- a/sci-biology/samtools/samtools-1.2-r1.ebuild +++ b/sci-biology/samtools/samtools-1.2-r1.ebuild @@ -8,7 +8,7 @@ PYTHON_COMPAT=( python2_7 ) inherit eutils multilib python-r1 toolchain-funcs -DESCRIPTION="Utilities for SAM (Sequence Alignment/Map), a format for large nucleotide sequence alignments" +DESCRIPTION="Utilities for SAM (Sequence Alignment/Map)" HOMEPAGE="http://www.htslib.org/" SRC_URI="mirror://sourceforge/${PN}/${P}.tar.bz2" diff --git a/sci-biology/scaffold_builder/scaffold_builder-20131122-r1.ebuild b/sci-biology/scaffold_builder/scaffold_builder-20131122-r1.ebuild index 0a7ae5400..b57b6a081 100644 --- a/sci-biology/scaffold_builder/scaffold_builder-20131122-r1.ebuild +++ b/sci-biology/scaffold_builder/scaffold_builder-20131122-r1.ebuild @@ -8,7 +8,7 @@ PYTHON_COMPAT=( python2_7 ) inherit python-r1 -DESCRIPTION="Combine FASTA contigs from a de novo assembly into scaffolds using a reference genome" +DESCRIPTION="Combine FASTA contigs from a de novo assembly into scaffolds" HOMEPAGE=" http://sourceforge.net/projects/scaffold-b http://edwards.sdsu.edu/scaffold_builder" diff --git a/sci-biology/sclust/sclust-0.1.ebuild b/sci-biology/sclust/sclust-0.1.ebuild index cb5fe1f1f..1ee71b67c 100644 --- a/sci-biology/sclust/sclust-0.1.ebuild +++ b/sci-biology/sclust/sclust-0.1.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="seeded clustering tool by processing pairwise alignments from TIGR Gene Indices project tools" +DESCRIPTION="Seeded clustering tool by processing pairwise alignments" HOMEPAGE="http://compbio.dfci.harvard.edu/tgi/software/" SRC_URI=" ftp://occams.dfci.harvard.edu/pub/bio/tgi/software/tgicl/${PN}.tar.gz diff --git a/sci-biology/sequin/sequin-20121202.ebuild b/sci-biology/sequin/sequin-20121202.ebuild index f0fc0018f..da9832e30 100644 --- a/sci-biology/sequin/sequin-20121202.ebuild +++ b/sci-biology/sequin/sequin-20121202.ebuild @@ -6,7 +6,7 @@ EAPI=5 inherit eutils -DESCRIPTION="A tool to facilitate submission of data to the GenBank, EMBL, and DDBJ sequence databases" +DESCRIPTION="Facilitate submission of data to the GenBank, EMBL, and DDBJ sequence databases" HOMEPAGE="http://www.ncbi.nlm.nih.gov/Sequin/" SRC_URI=" amd64? ( ftp://ftp.ncbi.nih.gov/sequin/sequin.linux-x86_64.tar.gz -> ${P}-x86_64.tar.gz ) diff --git a/sci-biology/sgp2/sgp2-1.1.ebuild b/sci-biology/sgp2/sgp2-1.1.ebuild index 0c8f94fe3..b8ab0272d 100644 --- a/sci-biology/sgp2/sgp2-1.1.ebuild +++ b/sci-biology/sgp2/sgp2-1.1.ebuild @@ -6,7 +6,7 @@ EAPI=5 inherit eutils -DESCRIPTION="Find ORFs by comparing two genomic/EST sequences using tblastx and geneid ab initio predictions" +DESCRIPTION="Find ORFs by comparing two genomic/EST sequences" HOMEPAGE="http://genome.crg.es/software/sgp2/" SRC_URI="ftp://genome.crg.es/pub/software/sgp2/sgp2_v1.1.May_8_2012.tar.gz" diff --git a/sci-biology/sickle/sickle-1.33.ebuild b/sci-biology/sickle/sickle-1.33.ebuild index c790d5b86..1d7947812 100644 --- a/sci-biology/sickle/sickle-1.33.ebuild +++ b/sci-biology/sickle/sickle-1.33.ebuild @@ -8,7 +8,7 @@ inherit eutils eutils toolchain-funcs [ "$PV" == "9999" ] && inherit git-r3 -DESCRIPTION="Windowed adaptive quality-based trimming tool for FASTQ data from Illumina/Solexa" +DESCRIPTION="Windowed adaptive quality-based trimming tool for FASTQ data" HOMEPAGE="https://github.com/najoshi/sickle" if [ "$PV" == "9999" ]; then EGIT_REPO_URI="https://github.com/najoshi/sickle" diff --git a/sci-biology/sickle/sickle-9999.ebuild b/sci-biology/sickle/sickle-9999.ebuild index c790d5b86..1d7947812 100644 --- a/sci-biology/sickle/sickle-9999.ebuild +++ b/sci-biology/sickle/sickle-9999.ebuild @@ -8,7 +8,7 @@ inherit eutils eutils toolchain-funcs [ "$PV" == "9999" ] && inherit git-r3 -DESCRIPTION="Windowed adaptive quality-based trimming tool for FASTQ data from Illumina/Solexa" +DESCRIPTION="Windowed adaptive quality-based trimming tool for FASTQ data" HOMEPAGE="https://github.com/najoshi/sickle" if [ "$PV" == "9999" ]; then EGIT_REPO_URI="https://github.com/najoshi/sickle" diff --git a/sci-biology/skewer-bin/skewer-bin-0.1.104.ebuild b/sci-biology/skewer-bin/skewer-bin-0.1.104.ebuild index c87332618..772cd67ba 100644 --- a/sci-biology/skewer-bin/skewer-bin-0.1.104.ebuild +++ b/sci-biology/skewer-bin/skewer-bin-0.1.104.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="Adaptor and MID removal / trimming tool, also for Illumina-oriented paired-end reads" +DESCRIPTION="Adaptor and MID removal / trimming tool" HOMEPAGE="http://sourceforge.net/projects/skewer" SRC_URI=" http://sourceforge.net/projects/skewer/files/Binaries/skewer-0.1.104-linux-x86_64 diff --git a/sci-biology/smalt-bin/smalt-bin-0.7.4.ebuild b/sci-biology/smalt-bin/smalt-bin-0.7.4.ebuild index 694fc7d98..fda536879 100644 --- a/sci-biology/smalt-bin/smalt-bin-0.7.4.ebuild +++ b/sci-biology/smalt-bin/smalt-bin-0.7.4.ebuild @@ -7,7 +7,7 @@ EAPI=5 MY_PN="${PN%-bin}" MY_P="${MY_PN}-${PV}" -DESCRIPTION="Pairwise sequence alignment mapping DNA reads onto genomic reference, better over SSAHA2" +DESCRIPTION="Pairwise sequence alignment mapping DNA reads onto genomic reference" HOMEPAGE="http://www.sanger.ac.uk/resources/software/smalt/" SRC_URI="ftp://ftp.sanger.ac.uk/pub4/resources/software/${MY_PN}/${MY_P}.tgz" diff --git a/sci-biology/stacks/stacks-1.44.ebuild b/sci-biology/stacks/stacks-1.44.ebuild index 0b4ca8016..48617329e 100644 --- a/sci-biology/stacks/stacks-1.44.ebuild +++ b/sci-biology/stacks/stacks-1.44.ebuild @@ -8,7 +8,7 @@ AUTOTOOLS_AUTORECONF=yes inherit flag-o-matic eutils perl-module webapp autotools -DESCRIPTION="Analyze restriction enzyme data, draw gen. maps, population genomics (RAD-seq sequencing)" +DESCRIPTION="Analyze restriction enzyme data, draw gen. maps, population genomics" HOMEPAGE="http://creskolab.uoregon.edu/stacks" SRC_URI="http://creskolab.uoregon.edu/stacks/source/${P}.tar.gz" diff --git a/sci-biology/subread/subread-1.4.6.ebuild b/sci-biology/subread/subread-1.4.6.ebuild index 3f42edffc..ac164fdc6 100644 --- a/sci-biology/subread/subread-1.4.6.ebuild +++ b/sci-biology/subread/subread-1.4.6.ebuild @@ -6,7 +6,7 @@ EAPI=5 [ "$PV" == "9999" ] && inherit subversion -DESCRIPTION="NGS suite for read mapping, analysis of mapped reads, summary of exon/intron/gene counts" +DESCRIPTION="NGS suite for analysis of mapped reads, summary of exon/intron/gene counts" HOMEPAGE="http://bioinf.wehi.edu.au/featureCounts/" if [ "$PV" == "9999" ]; then ESVN_REPO_URI="https://subread.svn.sourceforge.net/svnroot/subread/trunk" diff --git a/sci-biology/symap/symap-4.0.ebuild b/sci-biology/symap/symap-4.0.ebuild index 42ce623b8..9fe8c961b 100644 --- a/sci-biology/symap/symap-4.0.ebuild +++ b/sci-biology/symap/symap-4.0.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="Synteny Mapping and Analysis Program between chromosomes, contigs and physical maps" +DESCRIPTION="Synteny Mapping and Analysis Program" HOMEPAGE="http://www.agcol.arizona.edu/software/symap/" SRC_URI="symap_40.tar.gz" diff --git a/sci-biology/tgicl/tgicl-2.1.ebuild b/sci-biology/tgicl/tgicl-2.1.ebuild index ae10de3d3..190b419f1 100644 --- a/sci-biology/tgicl/tgicl-2.1.ebuild +++ b/sci-biology/tgicl/tgicl-2.1.ebuild @@ -6,7 +6,7 @@ EAPI=5 inherit perl-module -DESCRIPTION="TIGR perl scripts for clustering large EST/mRNAs datasets and aceconv, mgblast and pvmsx binaries" +DESCRIPTION="TIGR perl scripts for clustering" HOMEPAGE="http://sourceforge.net/projects/tgicl" SRC_URI="http://sourceforge.net/projects/tgicl/files/tgicl%20v2.1/TGICL-2.1.tar.gz" diff --git a/sci-biology/trowel/trowel-0.1.4.1.ebuild b/sci-biology/trowel/trowel-0.1.4.1.ebuild index ae4282f65..bfdd7b022 100644 --- a/sci-biology/trowel/trowel-0.1.4.1.ebuild +++ b/sci-biology/trowel/trowel-0.1.4.1.ebuild @@ -4,7 +4,7 @@ EAPI=5 -DESCRIPTION="Error corrector for genomic Illumina FASTQ reads using QUALs and not coverage info" +DESCRIPTION="Error corrector for genomic Illumina FASTQ reads" HOMEPAGE="http://sourceforge.net/projects/trowel-ec" SRC_URI="http://downloads.sourceforge.net/project/trowel-ec/src/trowel.0.1.4.1.src.tar.gz" diff --git a/sci-biology/wgs-assembler/wgs-assembler-8.3_rc2.ebuild b/sci-biology/wgs-assembler/wgs-assembler-8.3_rc2.ebuild index 35f7f5870..a1aaacaf7 100644 --- a/sci-biology/wgs-assembler/wgs-assembler-8.3_rc2.ebuild +++ b/sci-biology/wgs-assembler/wgs-assembler-8.3_rc2.ebuild @@ -10,7 +10,7 @@ inherit eutils python-single-r1 toolchain-funcs MY_PV="${PV/_}" # convert from _rc2 to rc2 -DESCRIPTION="De novo whole-genome shotgun DNA sequence OLC assembler (Celera Assembler, CABOG)" +DESCRIPTION="De novo whole-genome shotgun DNA sequence OLC assembler" HOMEPAGE="http://sourceforge.net/projects/wgs-assembler/" SRC_URI="http://sourceforge.net/projects/${PN}/files/${PN}/wgs-8.3/wgs-${MY_PV}.tar.bz2" |