diff options
Diffstat (limited to 'academic')
| -rw-r--r-- | academic/sequence-analysis/README | 19 | ||||
| -rw-r--r-- | academic/sequence-analysis/sequence-analysis.SlackBuild | 31 | ||||
| -rw-r--r-- | academic/sequence-analysis/sequence-analysis.info | 8 |
3 files changed, 46 insertions, 12 deletions
diff --git a/academic/sequence-analysis/README b/academic/sequence-analysis/README index 82dab2ac4c..87646b3052 100644 --- a/academic/sequence-analysis/README +++ b/academic/sequence-analysis/README @@ -1 +1,20 @@ A collage of coding projects for biologic sequences analysis. + +The upper window panel can hold several sequences, which are both +editable and selectable. The tabs in the lower analysis panel try to +keep up with the current sequence selection to provide immediate +feedback. The selection is used in some modules as only the portion +being analyzed for other modules i.e. Digest is used to determine if +enzymes cut in the in or outside of the selection. + +Most commonly available sequence formats have been reverse engineered. +You can also access a sequences from the NCBI via its GID or UID. This +currently cannot be done from behind a firewall. + +Most of the analyses are simple enough that they are obvious to use, +Composition, pI. Others could stand some documenation i.e. Pairwise +and Primer Design. The Publish tab uses a string to control the +layout. Click on the Legend button for some help. + +NOTE: +The 'source' is hosted at SourceForge by the SlackBuild maintainer. diff --git a/academic/sequence-analysis/sequence-analysis.SlackBuild b/academic/sequence-analysis/sequence-analysis.SlackBuild index f7419ac791..03a62d71d7 100644 --- a/academic/sequence-analysis/sequence-analysis.SlackBuild +++ b/academic/sequence-analysis/sequence-analysis.SlackBuild @@ -1,19 +1,34 @@ #!/bin/sh # Slackware build script for sequence-analysis -# Written by Petar Petrov, <ppetrov@paju.oulu.fi> and -# hereby submitted to the public domain -# THIS SLACKBUILD IS DISTRIBUTETD IN THE HOPE OF BEING -# USEFUL BUT WITHOUT ANY WARRANTY. THE AUTHOR IS _NOT_ -# RESPONSIBLE FOR ANY DAMAGE OR DATA LOSS CAUSED BY IT. +# Copyright 2011-2015 Petar Petrov, petar.petrov@student.oulu.fi +# All rights reserved. +# +# Redistribution and use of this script, with or without modification, is +# permitted provided that the following conditions are met: +# +# 1. Redistributions of this script must retain the above copyright +# notice, this list of conditions and the following disclaimer. +# +# THIS SOFTWARE IS PROVIDED BY THE AUTHOR "AS IS" AND ANY EXPRESS OR IMPLIED +# WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF +# MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO +# EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, +# SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, +# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; +# OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, +# WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR +# OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF +# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. PRGNAM=sequence-analysis -VERSION=${VERSION:-1.6.0} -ARCH=noarch -BUILD=${BUILD:-2} +VERSION=${VERSION:-1.7.2} +BUILD=${BUILD:-1} TAG=${TAG:-_SBo} +ARCH=noarch + CWD=$(pwd) TMP=${TMP:-/tmp/SBo} PKG=$TMP/package-$PRGNAM diff --git a/academic/sequence-analysis/sequence-analysis.info b/academic/sequence-analysis/sequence-analysis.info index ab8951183f..fe94933976 100644 --- a/academic/sequence-analysis/sequence-analysis.info +++ b/academic/sequence-analysis/sequence-analysis.info @@ -1,10 +1,10 @@ PRGNAM="sequence-analysis" -VERSION="1.6.0" +VERSION="1.7.2" HOMEPAGE="http://informagen.com/SA/" -DOWNLOAD="http://urchlay.naptime.net/~urchlay/src/sa.jar" -MD5SUM="48609bfdd0d689cc62467159a0308886" +DOWNLOAD="http://sourceforge.net/projects/sboppetrov/files/sequence-analysis/1.7.2/sa.jar" +MD5SUM="815c7e6a8717a9e2a7fedc9ed94fbd0e" DOWNLOAD_x86_64="" MD5SUM_x86_64="" REQUIRES="jdk" MAINTAINER="Petar Petrov" -EMAIL="ppetrov@paju.oulu.fi" +EMAIL="petar.petrov@student.oulu.fi" |