# HG changeset patch
# User dfornika
# Date 1562642075 14400
# Node ID 1ede45efb8eb3c1b3e0f68c4163aa1c189e5e921
# Parent  5542de6121ac4ef82fd3a33d0465450b8a1b3091
planemo upload for repository https://github.com/dfornika/galaxy/tree/master/tools/cgview commit 423cf96266f6ac433052ff72edb1397502313010-dirty

diff -r 5542de6121ac -r 1ede45efb8eb reformat_blastn_output.xml
--- 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>
diff -r 5542de6121ac -r 1ede45efb8eb test-data/blastn_output_reformatted.tsv
--- /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