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changeset 59:b2e673e1db33

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ncbi download binary
author bgruening
date Mon, 26 Aug 2013 17:13:45 -0400
parents d602d8b1dc4f
children f17bdf6f27bd
files tool_dependencies.xml
diffstat 1 files changed, 36 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Mon Aug 26 17:13:45 2013 -0400
@@ -0,0 +1,36 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="blast+" version="2.2.26+">
+        <install version="1.0">
+            <actions>
+
+            <action type="download_binary">
+                <url_template architecture="x86_64" os="linux">ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.26/ncbi-blast-2.2.26+-x64-linux.tar.gz</url_template>
+                <url_template architecture="i386" os="linux">ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.26/ncbi-blast-2.2.26+-ia32-linux.tar.gz</url_template>
+                <url_template architecture="i686" os="linux">ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.26/ncbi-blast-2.2.26+-ia32-linux.tar.gz</url_template>
+                <url_template architecture="i686" os="darwin">ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.26/ncbi-blast-2.2.26+-universal-macosx.tar.gz</url_template>
+                <url_template architecture="i386" os="darwin">ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.26/ncbi-blast-2.2.26+-universal-macosx.tar.gz</url_template>
+                <url_template architecture="x86_64" os="darwin">ftp://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.2.26/ncbi-blast-2.2.26+-universal-macosx.tar.gz</url_template>
+            </action>
+
+            <action type="shell_command">
+                tar -zxvf $INSTALL_DIR/ncbi-blast-2.2.26+-x64-linux.tar.gz ;
+                tar -zxvf $INSTALL_DIR/ncbi-blast-2.2.26+-ia32-linux.tar.gz ;
+                tar -zxvf $INSTALL_DIR/ncbi-blast-2.2.26+-universal-macosx.tar.gz ;
+            </action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+Downloads the precompiled 32bit Linux, 64bit Linux, or Mac OS X BLAST+
+binaries from the NCBI, which is faster than performing a local compliation,
+avoids any issues with build dependencies, and is more reproducible between
+installations as there is no variability from the compiler or library versions.
+
+For more details, see:
+http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&amp;PAGE_TYPE=BlastDocs&amp;DOC_TYPE=Download
+        </readme>
+    </package>
+</tool_dependency>