Mercurial > repos > nml > pangolin
comparison pangolin.xml @ 3:24c005390360 draft
"planemo upload for repository https://github.com/hCoV-2019/pangolin commit 8a1337fc6ef2b8b3f2f82ebdf3ee8dbb6e3ff1ed"
| author | nml |
|---|---|
| date | Mon, 11 May 2020 19:23:31 -0400 |
| parents | c897e502c084 |
| children | 35566aadcfc7 |
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| 2:c897e502c084 | 3:24c005390360 |
|---|---|
| 39 </collection> | 39 </collection> |
| 40 </outputs> | 40 </outputs> |
| 41 <tests> | 41 <tests> |
| 42 <test> | 42 <test> |
| 43 <param name="input1" value="test_seqs.fasta" /> | 43 <param name="input1" value="test_seqs.fasta" /> |
| 44 <output name="lineage_report" value="lineage_report.tsv" /> | 44 <output name="lineage_report" > |
| 45 <assert_contents> | |
| 46 <has_text text="Japan/DP0779/2020|EPI_ISL_416626||Japan|unknown||2020-02-17" /> | |
| 47 <has_text text="USA/NY-NYUMC7/2020|EPI_ISL_418192||USA|New_York|Manhattan|2020-03-16" /> | |
| 48 <has_text text="This_seq_is_too_short" /> | |
| 49 <has_text text="lineage" /> | |
| 50 </assert_contents> | |
| 51 </output> | |
| 45 </test> | 52 </test> |
| 46 <test> | 53 <test> |
| 47 <param name="input1" value="test_seqs.fasta" /> | 54 <param name="input1" value="test_seqs.fasta" /> |
| 48 <section name="additional"> | 55 <section name="additional"> |
| 49 <param name="write_tree" value="true" /> | 56 <param name="write_tree" value="true" /> |
| 50 </section> | 57 </section> |
| 51 <output name="lineage_report" value="lineage_report.tsv" /> | 58 <output name="lineage_report" > |
| 59 <assert_contents> | |
| 60 <has_text text="Japan/DP0779/2020|EPI_ISL_416626||Japan|unknown||2020-02-17" /> | |
| 61 <has_text text="USA/NY-NYUMC7/2020|EPI_ISL_418192||USA|New_York|Manhattan|2020-03-16" /> | |
| 62 <has_text text="This_seq_is_too_short" /> | |
| 63 <has_text text="lineage" /> | |
| 64 </assert_contents> | |
| 65 </output> | |
| 52 <output_collection name="pangolin_trees" type="list"> | 66 <output_collection name="pangolin_trees" type="list"> |
| 53 <element name="USA_NY-NYUMC7_2020_EPI_ISL_418192__USA_New_York_Manhattan_2020-03-16" ftype="iqtree"> | 67 <element name="USA_NY-NYUMC7_2020_EPI_ISL_418192__USA_New_York_Manhattan_2020-03-16" ftype="iqtree"> |
| 54 <assert_contents> | 68 <assert_contents> |
| 55 <has_text text="USA/NY-NYUMC7/2020|EPI_ISL_418192||USA|New_York|Manhattan|2020-03-16" /> | 69 <has_text text="USA/NY-NYUMC7/2020|EPI_ISL_418192||USA|New_York|Manhattan|2020-03-16" /> |
| 56 </assert_contents> | 70 </assert_contents> |