academic/ncbi-blast-plus: Updated for version 2.2.31.

Signed-off-by: Willy Sudiarto Raharjo <willysr@slackbuilds.org>

4 files changed, 23 insertions, 14 deletions

diff --git a/academic/ncbi-blast-plus/README b/academic/ncbi-blast-plus/README
index 0aeda537eb8d2..78b4f98c1cd6b 100644
--- a/academic/ncbi-blast-plus/README
+++ b/academic/ncbi-blast-plus/README
@@ -15,3 +15,9 @@ For details and citation, please see the BLAST+ user manual from the
 program's web site and the article in BMC Bioinformatics. 
 
 This just repackages the binaries provided from upstream.
+
+NOTE ABOUT x86:
+Since version 2.2.31, NCBI does not provide 32-bit executables of
+BLAST+ for Linux. Their reasoning is that the limited memory and
+processing power of 32-bit systems is not suitable for the large
+databases searched by BLAST.
diff --git a/academic/ncbi-blast-plus/ncbi-blast-plus.SlackBuild b/academic/ncbi-blast-plus/ncbi-blast-plus.SlackBuild
index ee43c76a4739b..cde0c8bf55828 100644
--- a/academic/ncbi-blast-plus/ncbi-blast-plus.SlackBuild
+++ b/academic/ncbi-blast-plus/ncbi-blast-plus.SlackBuild
@@ -23,12 +23,12 @@
 #  ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
 
 PRGNAM=ncbi-blast-plus
-VERSION=${VERSION:-2.2.30}
+VERSION=${VERSION:-2.2.31}
 BUILD=${BUILD:-1}
 TAG=${TAG:-_SBo}
 
 SRCNAM=ncbi-blast
-SRCVER=2.2.30+
+SRCVER=2.2.31+
 
 if [ -z "$ARCH" ]; then
   case "$( uname -m )" in
@@ -45,7 +45,10 @@ OUTPUT=${OUTPUT:-/tmp}
 
 set -e
 
-if [ "$ARCH" != "i386" ] && [ "$ARCH" != "x86_64" ]; then
+# Check for host architecture. Distribution of 32bit binaries has been
+# dropped from NCBI. For more information, please read:
+# http://www.ncbi.nlm.nih.gov/mailman/pipermail/blast-announce/2015q2/000112.html
+if [ "$ARCH" != "x86_64" ]; then
   printf "\n\n$ARCH is not supported... \n"
   exit 1
 fi
@@ -79,16 +82,16 @@ install -D -m755 blast_formatter	$PKG/usr/bin/blast_formatter
 install -D -m755 blastdb_aliastool	$PKG/usr/bin/blastdb_aliastool
 install -D -m755 blastdbcheck		$PKG/usr/bin/blastdbcheck
 install -D -m755 blastdbcmd		$PKG/usr/bin/blastdbcmd
-install -D -m755 blastn		$PKG/usr/bin/blastn
-install -D -m755 blastp		$PKG/usr/bin/blastp
-install -D -m755 blastx		$PKG/usr/bin/blastx
+install -D -m755 blastn			$PKG/usr/bin/blastn
+install -D -m755 blastp			$PKG/usr/bin/blastp
+install -D -m755 blastx			$PKG/usr/bin/blastx
 install -D -m755 convert2blastmask	$PKG/usr/bin/convert2blastmask
 install -D -m755 deltablast		$PKG/usr/bin/deltablast
 install -D -m755 dustmasker		$PKG/usr/bin/dustmasker
 install -D -m755 legacy_blast.pl	$PKG/usr/bin/legacy_blast.pl
 install -D -m755 makeblastdb		$PKG/usr/bin/makeblastdb
 install -D -m755 makembindex		$PKG/usr/bin/makembindex
-install -D -m755 makeprofiledb	$PKG/usr/bin/makeprofiledb
+install -D -m755 makeprofiledb		$PKG/usr/bin/makeprofiledb
 install -D -m755 psiblast		$PKG/usr/bin/psiblast
 install -D -m755 rpsblast		$PKG/usr/bin/rpsblast
 install -D -m755 rpstblastn		$PKG/usr/bin/rpstblastn
@@ -104,7 +107,7 @@ find $PKG -print0 | xargs -0 file | grep -e "executable" -e "shared object" | gr
 
 mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
 cp -a \
-  ChangeLog LICENSE README \
+  ChangeLog LICENSE README doc/README.txt \
   $PKG/usr/doc/$PRGNAM-$VERSION
 cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
 
diff --git a/academic/ncbi-blast-plus/ncbi-blast-plus.info b/academic/ncbi-blast-plus/ncbi-blast-plus.info
index 90f7048cd5a4a..a63ed3166c70b 100644
--- a/academic/ncbi-blast-plus/ncbi-blast-plus.info
+++ b/academic/ncbi-blast-plus/ncbi-blast-plus.info
@@ -1,10 +1,10 @@
 PRGNAM="ncbi-blast-plus"
-VERSION="2.2.30"
+VERSION="2.2.31"
 HOMEPAGE="http://blast.ncbi.nlm.nih.gov/"
-DOWNLOAD="ftp://ftp.ncbi.nih.gov/blast/executables/blast+/2.2.30/ncbi-blast-2.2.30+-ia32-linux.tar.gz"
-MD5SUM="658b6643f1e7b46f91642cf841e8462a"
-DOWNLOAD_x86_64="ftp://ftp.ncbi.nih.gov/blast/executables/blast+/2.2.30/ncbi-blast-2.2.30+-x64-linux.tar.gz"
-MD5SUM_x86_64="e767297c9b007d1ca8e3e385246941dd"
+DOWNLOAD="UNSUPPORTED"
+MD5SUM=""
+DOWNLOAD_x86_64="ftp://ftp.ncbi.nih.gov/blast/executables/blast+/2.2.31/ncbi-blast-2.2.31+-x64-linux.tar.gz"
+MD5SUM_x86_64="ae789a5bfb523cef95ac40e5a6b1929e"
 REQUIRES=""
 MAINTAINER="Petar Petrov"
 EMAIL="petar.petrov@student.oulu.fi"
diff --git a/academic/ncbi-blast-plus/slack-desc b/academic/ncbi-blast-plus/slack-desc
index c698328a33343..ab449ab00e869 100644
--- a/academic/ncbi-blast-plus/slack-desc
+++ b/academic/ncbi-blast-plus/slack-desc
@@ -13,7 +13,7 @@ ncbi-blast-plus: Toolkit. The BLAST+ applications have a number of performance a
 ncbi-blast-plus: feature improvements over the legacy BLAST applications (ncbi-blast).
 ncbi-blast-plus:
 ncbi-blast-plus: Home: http://blast.ncbi.nlm.nih.gov/
-ncbi-blast-plus: References: /usr/doc/ncbi-blast-plus-$VERSION/References
+ncbi-blast-plus: References: /usr/doc/ncbi-blast-plus-2.2.31/References
 ncbi-blast-plus:
 ncbi-blast-plus:
 ncbi-blast-plus: