Mercurial > repos > devteam > ncbi_blast_plus
comparison tools/ncbi_blast_plus/ncbi_tblastx_wrapper.xml @ 4:9d5beacae92b draft
Uploaded v0.0.13 which uses the recently added error handling. No longer bundles the hide_stderr.py script which is now redundant.
| author | peterjc |
|---|---|
| date | Wed, 19 Sep 2012 13:08:31 -0400 |
| parents | 643338ac83c0 |
| children | 393a7a35383c |
comparison
equal
deleted
inserted
replaced
| 3:643338ac83c0 | 4:9d5beacae92b |
|---|---|
| 1 <tool id="ncbi_tblastx_wrapper" name="NCBI BLAST+ tblastx" version="0.0.12"> | 1 <tool id="ncbi_tblastx_wrapper" name="NCBI BLAST+ tblastx" version="0.0.13"> |
| 2 <description>Search translated nucleotide database with translated nucleotide query sequence(s)</description> | 2 <description>Search translated nucleotide database with translated nucleotide query sequence(s)</description> |
| 3 <!-- If job splitting is enabled, break up the query file into parts --> | 3 <!-- If job splitting is enabled, break up the query file into parts --> |
| 4 <parallelism method="multi" split_inputs="query" split_mode="to_size" split_size="1000" shared_inputs="subject" merge_outputs="output1"></parallelism> | 4 <parallelism method="multi" split_inputs="query" split_mode="to_size" split_size="1000" shared_inputs="subject" merge_outputs="output1"></parallelism> |
| 5 <version_command>tblastx -version</version_command> | 5 <version_command>tblastx -version</version_command> |
| 6 <command interpreter="python">hide_stderr.py | 6 <command> |
| 7 ## The command is a Cheetah template which allows some Python based syntax. | 7 ## The command is a Cheetah template which allows some Python based syntax. |
| 8 ## Lines starting hash hash are comments. Galaxy will turn newlines into spaces | 8 ## Lines starting hash hash are comments. Galaxy will turn newlines into spaces |
| 9 tblastx | 9 tblastx |
| 10 -query "$query" | 10 -query "$query" |
| 11 #if $db_opts.db_opts_selector == "db": | 11 #if $db_opts.db_opts_selector == "db": |
| 38 #end if | 38 #end if |
| 39 $adv_opts.parse_deflines | 39 $adv_opts.parse_deflines |
| 40 ## End of advanced options: | 40 ## End of advanced options: |
| 41 #end if | 41 #end if |
| 42 </command> | 42 </command> |
| 43 <stdio> | |
| 44 <exit_code range="1:" /> | |
| 45 <exit_code range="://0" /> | |
| 46 </stdio> | |
| 43 <inputs> | 47 <inputs> |
| 44 <param name="query" type="data" format="fasta" label="Nucleotide query sequence(s)"/> | 48 <param name="query" type="data" format="fasta" label="Nucleotide query sequence(s)"/> |
| 45 <conditional name="db_opts"> | 49 <conditional name="db_opts"> |
| 46 <param name="db_opts_selector" type="select" label="Subject database/sequences"> | 50 <param name="db_opts_selector" type="select" label="Subject database/sequences"> |
| 47 <option value="db" selected="True">BLAST Database</option> | 51 <option value="db" selected="True">BLAST Database</option> |