Mercurial > repos > geert-vandeweyer > clusterfast
changeset 0:1b008b4b05f3 draft
Uploaded
| author | geert-vandeweyer |
|---|---|
| date | Mon, 28 Jul 2014 05:51:33 -0400 |
| parents | |
| children | 4a3afa90ff7f |
| files | readme.rst tool_data_table_conf.xml.sample tool_dependencies.xml |
| diffstat | 3 files changed, 52 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/readme.rst Mon Jul 28 05:51:33 2014 -0400 @@ -0,0 +1,16 @@ +Galaxy tool_dependency for NovoAlign +==================================== + +This tool_dependency is written by Geert Vandeweyer. NovoAlign is a product of Novocraft, and is available only for open non-profit use without license. + +To obtain Novoalign, go to http://www.novocraft.com/main/page.php?id=968 + +Download the approriate package, unpack the folder and edit the NOVOALIGN_PATH environment variable in the file: + +<tool_dependency_dir>/environment_settings/NOVOALIGN_PATH/geert-vandeweyer/package_novoalign/<hash_string>/env.sh + +to point to the folder where you have installed NovoAlign. + +To prepare the index files, use: novoindex <index.file.naidx> <fasta file(s)> + +Finally, you need to set up the <path>/galaxy-dist/tool-data/<toolshed>/repos/geert-vandeweyer/package_novoalign/<hash>/novoalign.loc file for the correct path of your index files.
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_data_table_conf.xml.sample Mon Jul 28 05:51:33 2014 -0400 @@ -0,0 +1,8 @@ +<!-- Use the file tool_data_table_conf.xml.oldlocstyle if you don't want to update your loc files as changed in revision 4550:535d276c92bc--> +<tables> + <!-- Locations of all index files under genome directory --> + <table name="novoalign" comment_char="#"> + <columns>value, dbkey, name, path</columns> + <file path="novoalign.loc" /> + </table> +</tables>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Mon Jul 28 05:51:33 2014 -0400 @@ -0,0 +1,28 @@ +<?xml version='1.0' encoding='utf-8'?> +<tool_dependency> +<package name="novoalign" version='latest'> + <install version='1.0'> + <actions> + <action type="set_environment"> + <environment_variable action="set_to" name="NOVOALIGN_PATH">/Set/Path/to/NovoAlign/Installation/folder</environment_variable> + </action> + </actions> + </install> + <readme> +Galaxy tool_dependency for NovoAlign +==================================== + +This tool_dependency is written by Geert Vandeweyer. NovoAlign is a product of Novocraft, and is available only for open non-profit use without license. + +To obtain Novoalign, go to http://www.novocraft.com/main/page.php?id=968 + +Download the approriate package, unpack the folder and edit the NOVOALIGN_PATH environment variable in the file: + +<tool_dependency_dir>/environment_settings/NOVOALIGN_PATH/geert-vandeweyer/package_novoalign/<hash_string>/env.sh + +to point to the folder where you have installed NovoAlign. + + </readme> +</package> + +</tool_dependency>