Mercurial > repos > peterjc > package_blast_plus_2_7_0
changeset 0:41d77fdeeec5 draft default tip
"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 |
| parents | |
| children | |
| files | tool_dependencies.xml |
| diffstat | 1 files changed, 52 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Wed Sep 09 15:12:25 2020 +0000 @@ -0,0 +1,52 @@ +<?xml version='1.0' encoding='utf-8'?> +<tool_dependency> + <package name="blast" version="2.7.0"> + <install version="1.0"> + <actions_group> + <!-- Download the binaries for BLAST+ compatible with 64-bit OSX. --> + <actions os="darwin" architecture="x86_64"> + <!-- Original URL https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.7.0/ncbi-blast-2.7.0+-x64-macosx.tar.gz --> + <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> + <action type="move_directory_files"> + <source_directory>bin</source_directory> + <destination_directory>$INSTALL_DIR</destination_directory> + </action> + </actions> + <!-- Download the binaries for BLAST+ compatible with 64-bit Linux. --> + <actions os="linux" architecture="x86_64"> + <!-- Original URL https://ftp.ncbi.nlm.nih.gov/blast/executables/blast+/2.7.0/ncbi-blast-2.7.0+-x64-linux.tar.gz --> + <action type="download_by_url" sha256sum="cf61c3a687dae6475e73b571bf06ff92cbbb74a2cdc557f1059d0f12485eb10e" target_filename="ncbi-blast-2.7.0+-x64-linux.tar.gz">https://depot.galaxyproject.org/software/blast_plus/blast_plus_2.7.0_linux_x64.tar.gz</action> + <action type="move_directory_files"> + <source_directory>bin</source_directory> + <destination_directory>$INSTALL_DIR</destination_directory> + </action> + </actions> + <actions> + <action type="shell_command">echo "ERROR: Automated installation on your operating system and CPU architecture combination is not supported."</action> + <action type="shell_command">echo "Your machine details (the output from 'uname' and 'arch'):"</action> + <action type="shell_command">uname</action> + <action type="shell_command">arch</action> + <action type="shell_command">echo "Please report this via https://github.com/peterjc/galaxy_blast/issues - thank you!"</action> + <action type="shell_command">false</action> + <!-- The 'false' command will return an error, so Galaxy should treat this as a failed install --> + </actions> + <!-- The $PATH environment variable is only set if one of the above <actions> tags resulted in a successful installation. --> + <action type="set_environment"> + <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable> + <environment_variable name="BLAST_ROOT_DIR" action="set_to">$INSTALL_DIR</environment_variable> + </action> + </actions_group> + </install> + <readme> +Downloads the precompiled 64 bit Linux, or Mac OS X BLAST+ binaries from the NCBI, +which is faster than performing a local compilation, avoids any issues with build +dependencies, and is more reproducible between installations as there is no +variability from the compiler or library versions. + +Note that NCBI do not provide any 32 bit binaries anymore. + +For more details, see: +http://blast.ncbi.nlm.nih.gov/Blast.cgi?CMD=Web&PAGE_TYPE=BlastDocs&DOC_TYPE=Download + </readme> + </package> +</tool_dependency>