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academic/ugene: Updated for version 1.14.1.

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Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>
This commit is contained in:
Petar Petrov 2014-10-01 09:11:46 +07:00 committed by Willy Sudiarto Raharjo
parent 33ad3c32e1
commit d8d998a602
4 changed files with 11 additions and 9 deletions
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10
academic/ugene/README
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@ -21,23 +21,25 @@ be launched on local resources or in a High Performance Computing
built-in plugin system and structured UGENE API make it possible to
extend the toolkit with new functionality.
IMPORTANT: External tools
EXTERNAL TOOLS
UGENE can use and drive a number of external tools, providing a nice
and unified GUI. These are not needed at build time, but are highly
recommended for the complete (and extended) functionality of the
program. Almost all of them can be found at SlackBuilds.org:
- cistrome-CEAS (CEAS: Cis-regulatory Element Annotation System)
- cistrome-MACS (MACS: Model-based Analysis of ChIP-Seq)
- cufflinks (A reference-guided assembler for RNA-Seq experiments)
- bedtools (A powerful toolset for genome arithmetic)
- bowtie (A short read aligner of DNA sequences)
- bowtie2 (A tool for aligning sequencing reads)
- bwa (Burrows-Wheeler Aligner)
- cap3 (CAP3: A DNA sequence assembly program)
- cistrome-CEAS (CEAS: Cis-regulatory Element Annotation System)
- cistrome-MACS (MACS: Model-based Analysis of ChIP-Seq)
- clustalo (Clustal Omega)
- clustalw (Multiple Sequence Alignment)
- cufflinks (A reference-guided assembler for RNA-Seq experiments)
- ncbi-blast (BLAST: Basic Local Alignment Search Tool)
- ncbi-blast-plus (BLAST+ Command Line Applications)
- PhyML (Phylogenetic estimation using Maximum Likelihood)
- samtools (Sequence Alignment/Map Tools)
- spidey (mRNA-to-genomic alignment)
- t_coffee (A multiple sequence alignment program)

2
academic/ugene/slack-desc
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@ -16,4 +16,4 @@ ugene: user nterface. The toolkit supports multiple biological data formats
ugene: and allows the retrieval of data from remote data sources.
ugene:
ugene: Home: http://ugene.unipro.ru/
ugene: References: /usr/doc/ugene-1.13.3/References
ugene: References: /usr/doc/ugene-1.14.1/References

2
academic/ugene/ugene.SlackBuild
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@ -23,7 +23,7 @@
# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
PRGNAM=ugene
VERSION=${VERSION:-1.13.3}
VERSION=${VERSION:-1.14.1}
BUILD=${BUILD:-1}
TAG=${TAG:-_SBo}

6
academic/ugene/ugene.info
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@ -1,8 +1,8 @@
PRGNAM="ugene"
VERSION="1.13.3"
VERSION="1.14.1"
HOMEPAGE="http://ugene.unipro.ru/"
DOWNLOAD="http://ugene.unipro.ru/downloads/ugene-1.13.3.tar.gz"
MD5SUM="c24bb76304c8e79bd62154941927326b"
DOWNLOAD="http://ugene.unipro.ru/downloads/ugene-1.14.1.tar.gz"
MD5SUM="d81d945a5e38dbb50b84156f40df6968"
DOWNLOAD_x86_64=""
MD5SUM_x86_64=""
REQUIRES=""