Mercurial > repos > peterjc > package_blast_plus_2_7_0

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"planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
author peterjc
date Wed, 09 Sep 2020 15:12:25 +0000
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41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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1 <?xml version='1.0' encoding='utf-8'?>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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2 <tool_dependency>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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3 <package name="blast" version="2.7.0">
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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4 <install version="1.0">
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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5 <actions_group>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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6 <!-- Download the binaries for BLAST+ compatible with 64-bit OSX. -->
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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7 <actions os="darwin" architecture="x86_64">
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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8 <!-- Original URL https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.7.0/ncbi-blast-2.7.0+-x64-macosx.tar.gz -->
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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9 <action type="download_by_url" sha256sum="c295aa858638a8194d6b4abbefedaa2759e67ee2932e3553ffbc4afa138b20ee" target_filename="ncbi-blast-2.7.0+-x64-macosx.tar.gz">https://depot.galaxyproject.org/software/blast_plus/blast_plus_2.7.0_darwin_x64.tar.gz</action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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10 <action type="move_directory_files">
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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11 <source_directory>bin</source_directory>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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12 <destination_directory>$INSTALL_DIR</destination_directory>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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13 </action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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14 </actions>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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15 <!-- Download the binaries for BLAST+ compatible with 64-bit Linux. -->
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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16 <actions os="linux" architecture="x86_64">
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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17 <!-- Original URL https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.7.0/ncbi-blast-2.7.0+-x64-linux.tar.gz -->
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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18 <action type="download_by_url" sha256sum="cf61c3a687dae6475e73b571bf06ff92cbbb74a2cdc557f1059d0f12485eb10e" target_filename="ncbi-blast-2.7.0+-x64-linux.tar.gz">https://depot.galaxyproject.org/software/blast_plus/blast_plus_2.7.0_linux_x64.tar.gz</action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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19 <action type="move_directory_files">
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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20 <source_directory>bin</source_directory>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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21 <destination_directory>$INSTALL_DIR</destination_directory>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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22 </action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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23 </actions>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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24 <actions>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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25 <action type="shell_command">echo "ERROR: Automated installation on your operating system and CPU architecture combination is not supported."</action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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26 <action type="shell_command">echo "Your machine details (the output from 'uname' and 'arch'):"</action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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27 <action type="shell_command">uname</action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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28 <action type="shell_command">arch</action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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29 <action type="shell_command">echo "Please report this via https://github.com/peterjc/galaxy_blast/issues - thank you!"</action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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30 <action type="shell_command">false</action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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31 <!-- The 'false' command will return an error, so Galaxy should treat this as a failed install -->
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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32 </actions>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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33 <!-- The $PATH environment variable is only set if one of the above <actions> tags resulted in a successful installation. -->
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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34 <action type="set_environment">
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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35 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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36 <environment_variable name="BLAST_ROOT_DIR" action="set_to">$INSTALL_DIR</environment_variable>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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37 </action>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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38 </actions_group>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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39 </install>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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40 <readme>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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41 Downloads the precompiled 64 bit Linux, or Mac OS X BLAST+ binaries from the NCBI,
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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42 which is faster than performing a local compilation, avoids any issues with build
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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43 dependencies, and is more reproducible between installations as there is no
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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44 variability from the compiler or library versions.
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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45
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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46 Note that NCBI do not provide any 32 bit binaries anymore.
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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47
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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48 For more details, see:
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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49 http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&amp;PAGE_TYPE=BlastDocs&amp;DOC_TYPE=Download
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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50 </readme>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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51 </package>
41d77fdeeec5 "planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/packages/package_blast_plus_2_7_0/ commit 3f9f39ad808325a11d9967980d2cb82c96d69324"
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52 </tool_dependency>