Mercurial > repos > bgruening > diamond
changeset 14:8b8a3f793f0f draft default tip
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/diamond commit 6e4899ebb6b1cc2af6011d20d40beaf8d4cbbb34
| author | iuc |
|---|---|
| date | Mon, 04 Aug 2025 13:27:25 +0000 |
| parents | 20d92dc4c6cb |
| children | |
| files | diamond_view.xml macros.xml test-data/diamond_results.xml |
| diffstat | 3 files changed, 6 insertions(+), 71 deletions(-) [+] |
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--- a/diamond_view.xml Tue Jun 10 13:52:02 2025 +0000 +++ b/diamond_view.xml Mon Aug 04 13:27:25 2025 +0000 @@ -42,7 +42,11 @@ <param name="hit_filter_select" value="max"/> <param name="max_target_seqs" value="1"/> </conditional> - <output name="blast_tabular" file="diamond_results.xml"/> + <output name="blast_tabular"> + <assert_contents> + <has_text text="<BlastOutput_version>diamond @TOOL_VERSION@</BlastOutput_version>"/> + </assert_contents> + </output> </test> <test expect_num_outputs="1"> <param name="daa" ftype="daa" value="diamond_results.daa"/>
--- a/macros.xml Tue Jun 10 13:52:02 2025 +0000 +++ b/macros.xml Mon Aug 04 13:27:25 2025 +0000 @@ -1,5 +1,5 @@ <macros> - <token name="@TOOL_VERSION@">2.1.12</token> + <token name="@TOOL_VERSION@">2.1.13</token> <token name="@VERSION_SUFFIX@">0</token> <xml name="requirements"> <requirements>
--- a/test-data/diamond_results.xml Tue Jun 10 13:52:02 2025 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,69 +0,0 @@ -<?xml version="1.0"?> -<!DOCTYPE BlastOutput PUBLIC "-//NCBI//NCBI BlastOutput/EN" "http://www.ncbi.nlm.nih.gov/dtd/NCBI_BlastOutput.dtd"> -<BlastOutput> - <BlastOutput_program>blastp</BlastOutput_program> - <BlastOutput_version>diamond 2.1.12</BlastOutput_version> - <BlastOutput_reference>Benjamin Buchfink, Xie Chao, and Daniel Huson (2015), "Fast and sensitive protein alignment using DIAMOND", Nature Methods 12:59-60.</BlastOutput_reference> - <BlastOutput_db></BlastOutput_db> - <BlastOutput_query-ID>Query_1</BlastOutput_query-ID> - <BlastOutput_query-def>sequence</BlastOutput_query-def> - <BlastOutput_query-len>283</BlastOutput_query-len> - <BlastOutput_param> - <Parameters> - <Parameters_matrix>blosum62</Parameters_matrix> - <Parameters_expect>0.001</Parameters_expect> - <Parameters_gap-open>11</Parameters_gap-open> - <Parameters_gap-extend>1</Parameters_gap-extend> - <Parameters_filter>F</Parameters_filter> - </Parameters> - </BlastOutput_param> -<BlastOutput_iterations> -<Iteration> - <Iteration_iter-num>1</Iteration_iter-num> - <Iteration_query-ID>Query_1</Iteration_query-ID> - <Iteration_query-def>sequence</Iteration_query-def> - <Iteration_query-len>283</Iteration_query-len> -<Iteration_hits> -<Hit> - <Hit_num>1</Hit_num> - <Hit_id>gi|5524211|gb|AAD44166.1|</Hit_id> - <Hit_def></Hit_def> - <Hit_accession>AAD44166</Hit_accession> - <Hit_len>284</Hit_len> - <Hit_hsps> - <Hsp> - <Hsp_num>1</Hsp_num> - <Hsp_bit-score>550</Hsp_bit-score> - <Hsp_score>1417</Hsp_score> - <Hsp_evalue>1.44e-205</Hsp_evalue> - <Hsp_query-from>1</Hsp_query-from> - <Hsp_query-to>283</Hsp_query-to> - <Hsp_hit-from>1</Hsp_hit-from> - <Hsp_hit-to>284</Hsp_hit-to> - <Hsp_query-frame>0</Hsp_query-frame> - <Hsp_hit-frame>0</Hsp_hit-frame> - <Hsp_identity>283</Hsp_identity> - <Hsp_positive>283</Hsp_positive> - <Hsp_gaps>1</Hsp_gaps> - <Hsp_align-len>284</Hsp_align-len> - <Hsp_qseq>LCLYTHIGRNIYYGSYLYSETWNTGIMLLLITMATAFMGYVLPWGQMSFWGATVITNLFSAIPYIGTNLVEWIWGGFSVDKATLNRFFAFHFIL-FTMVALAGVHLTFLHETGSNNPLGLTSDSDKIPFHPYYTIKDFLGLLILXXXXXXXALLSPDMLGDPDNHMPADPLNTPLHIKPEWYFLFAYAILRSVPNKLGGVLALFLSIVILGLMPFLHTSKHRSMMLRPLSQALFWTLTMDLLTLTWIGSQPVEYPYTIIGQMASILYFSIILAFLPIAGXIENY</Hsp_qseq> - <Hsp_hseq>LCLYTHIGRNIYYGSYLYSETWNTGIMLLLITMATAFMGYVLPWGQMSFWGATVITNLFSAIPYIGTNLVEWIWGGFSVDKATLNRFFAFHFILPFTMVALAGVHLTFLHETGSNNPLGLTSDSDKIPFHPYYTIKDFLGLLILXXXXXXXALLSPDMLGDPDNHMPADPLNTPLHIKPEWYFLFAYAILRSVPNKLGGVLALFLSIVILGLMPFLHTSKHRSMMLRPLSQALFWTLTMDLLTLTWIGSQPVEYPYTIIGQMASILYFSIILAFLPIAGXIENY</Hsp_hseq> - <Hsp_midline>LCLYTHIGRNIYYGSYLYSETWNTGIMLLLITMATAFMGYVLPWGQMSFWGATVITNLFSAIPYIGTNLVEWIWGGFSVDKATLNRFFAFHFIL FTMVALAGVHLTFLHETGSNNPLGLTSDSDKIPFHPYYTIKDFLGLLILXXXXXXXALLSPDMLGDPDNHMPADPLNTPLHIKPEWYFLFAYAILRSVPNKLGGVLALFLSIVILGLMPFLHTSKHRSMMLRPLSQALFWTLTMDLLTLTWIGSQPVEYPYTIIGQMASILYFSIILAFLPIAGXIENY</Hsp_midline> - </Hsp> - </Hit_hsps> -</Hit> -</Iteration_hits> - <Iteration_stat> - <Statistics> - <Statistics_db-num>2</Statistics_db-num> - <Statistics_db-len>568</Statistics_db-len> - <Statistics_hsp-len>0</Statistics_hsp-len> - <Statistics_eff-space>0</Statistics_eff-space> - <Statistics_kappa>0.041000</Statistics_kappa> - <Statistics_lambda>0.267000</Statistics_lambda> - <Statistics_entropy>0</Statistics_entropy> - </Statistics> - </Iteration_stat> -</Iteration> -</BlastOutput_iterations> -</BlastOutput> \ No newline at end of file