Mercurial > repos > dfornika > cgview
changeset 5:1ede45efb8eb draft
planemo upload for repository https://github.com/dfornika/galaxy/tree/master/tools/cgview commit 423cf96266f6ac433052ff72edb1397502313010-dirty
| author | dfornika |
|---|---|
| date | Mon, 08 Jul 2019 23:14:35 -0400 |
| parents | 5542de6121ac |
| children | ecd17b1142e6 |
| files | reformat_blastn_output.xml test-data/blastn_output_reformatted.tsv |
| diffstat | 2 files changed, 10 insertions(+), 1 deletions(-) [+] |
line wrap: on
line diff
--- a/reformat_blastn_output.xml Mon Jul 08 23:10:28 2019 -0400 +++ b/reformat_blastn_output.xml Mon Jul 08 23:14:35 2019 -0400 @@ -5,7 +5,7 @@ <command detect_errors="exit_code"> <![CDATA[ awk -F'\t' 'BEGIN {OFS = FS} $2 = $2 FS "match"' '${input}' | - sed '1iquery_id\tmatch_id\tmatch_description\t%_identity\talignment_length\tmismatches\tgap_openings\tq_start\tq_end\ts_start\ts_end\tevalue\tbit_score' '${input}' + sed '1iquery_id\tmatch_id\tmatch_description\t%_identity\talignment_length\tmismatches\tgap_openings\tq_start\tq_end\ts_start\ts_end\tevalue\tbit_score' > '${output}' ]]> </command>
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/blastn_output_reformatted.tsv Mon Jul 08 23:14:35 2019 -0400 @@ -0,0 +1,9 @@ +query_id match_id match_description %_identity alignment_length mismatches gap_openings q_start q_end s_start s_end evalue bit_score +LR595890.1_segment LR595890.1 match 100.00 9180 0 0 1 9180 23821 33000 0.0 16556 +LR595890.1_segment LR595890.1 match 75.25 198 49 0 7921 8118 31621 31818 8e-33 136 +LR595890.1_segment LR595890.1 match 75.25 198 49 0 7801 7998 31741 31938 8e-33 136 +LR595890.1_segment LR595890.1 match 89.61 77 6 1 1312 1388 56503 56577 6e-22 100 +LR595890.1_segment LR595890.1 match 74.17 120 31 0 7915 8034 30388 30507 7e-15 77.0 +LR595890.1_segment LR595890.1 match 74.17 120 31 0 6568 6687 31735 31854 7e-15 77.0 +LR595890.1_segment LR595890.1 match 84.29 70 7 2 1326 1393 56585 56518 3e-13 71.6 +LR595890.1_segment LR595890.1 match 79.76 84 8 5 1312 1389 89049 89129 5e-10 60.8