Add version to cath-resolve-hits output; fix tests

UCLOrengoGroup · Dec 27, 2017 · efccd10 · efccd10
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diff --git a/build-test-data/resolve_hits/cath_gene3d_dc_handling/dc_eg_domtblout.cath_rules.out b/build-test-data/resolve_hits/cath_gene3d_dc_handling/dc_eg_domtblout.cath_rules.out
@@ -1,3 +1,3 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 d4c32b05884c5eef301cf4c80f569f39 dc_288f384eb041b0c6f4e81f18aa6f3acd 291.1 24-276 24-276 1.2e-88 3.6e-84
diff --git a/build-test-data/resolve_hits/eg_domtblout.limit_2.out b/build-test-data/resolve_hits/eg_domtblout.limit_2.out
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 39.5 93-460 93-460 4.5e-12 2.2e-07
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 17.7 479-677 479-677 2.5e-05 1.2

diff --git a/build-test-data/resolve_hits/eg_domtblout.out b/build-test-data/resolve_hits/eg_domtblout.out
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 39.5 93-460 93-460 4.5e-12 2.2e-07
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 17.7 479-677 479-677 2.5e-05 1.2

diff --git a/build-test-data/resolve_hits/eg_hmmsearch_out.limit_2.out b/build-test-data/resolve_hits/eg_hmmsearch_out.limit_2.out
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 39.5 93-288,350-460 93-288,350-460 4.5e-12 2.2e-07
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 17.7 479-677 479-677 2.5e-05 1.2

diff --git a/build-test-data/resolve_hits/eg_hmmsearch_out.out b/build-test-data/resolve_hits/eg_hmmsearch_out.out
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 39.5 93-288,350-460 93-288,350-460 4.5e-12 2.2e-07
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 17.7 479-677 479-677 2.5e-05 1.2

diff --git a/build-test-data/resolve_hits/eg_hmmsearch_out.out_big_gap b/build-test-data/resolve_hits/eg_hmmsearch_out.out_big_gap
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 39.5 93-460 93-460 4.5e-12 2.2e-07
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 17.7 479-677 479-677 2.5e-05 1.2

diff --git a/build-test-data/resolve_hits/eg_hmmsearch_out.out_big_trim b/build-test-data/resolve_hits/eg_hmmsearch_out.out_big_trim
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 39.5 93-288,350-460 93-288,350-460 4.5e-12 2.2e-07
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 17.7 479-677 479-677 2.5e-05 1.2

diff --git a/build-test-data/resolve_hits/eg_hmmsearch_out.out_hmmsearch_aln_summ b/build-test-data/resolve_hits/eg_hmmsearch_out.out_hmmsearch_aln_summ
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved aligned-regions cond-evalue indp-evalue
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 39.5 93-288,350-460 93-288,350-460 40-75,140-175;76-84,189-197;85-97,199-211;98-137,213-252;138-163,255-280;164-169,283-288;170-170,350-350;174-174,351-351;175-195,363-383;197-216,384-403;217-234,414-431 4.5e-12 2.2e-07
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 17.7 479-677 479-677 31-48,500-517;49-49,520-520;50-66,530-546;68-93,547-572;95-95,573-573;96-108,583-595;109-158,597-646;159-170,655-666 2.5e-05 1.2

diff --git a/build-test-data/resolve_hits/eg_hmmsearch_out.out_output_trimmed b/build-test-data/resolve_hits/eg_hmmsearch_out.out_output_trimmed
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 39.5 98-283,355-455 93-288,350-460 4.5e-12 2.2e-07
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 17.7 484-672 479-677 2.5e-05 1.2

diff --git a/build-test-data/resolve_hits/eg_hmmsearch_out.out_small_gap b/build-test-data/resolve_hits/eg_hmmsearch_out.out_small_gap
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 39.5 93-175,189-197,199-211,213-252,255-280,283-288,350-351,363-403,414-460 93-175,189-197,199-211,213-252,255-280,363-403,414-460 4.5e-12 2.2e-07
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 17.7 479-517,520-520,530-573,583-595,597-646,655-677 479-517,530-573,583-595,597-646,655-677 2.5e-05 1.2

diff --git a/build-test-data/resolve_hits/eg_raw_evalue.limit_2.out b/build-test-data/resolve_hits/eg_raw_evalue.limit_2.out
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 9.812000e-13 93-288,350-460 93-288,350-460
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 4.159980e-06 479-677 479-677

diff --git a/build-test-data/resolve_hits/eg_raw_evalue.out b/build-test-data/resolve_hits/eg_raw_evalue.out
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 9.812000e-13 93-288,350-460 93-288,350-460
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 4.159980e-06 479-677 479-677

diff --git a/build-test-data/resolve_hits/eg_raw_score.limit_2.out b/build-test-data/resolve_hits/eg_raw_score.limit_2.out
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 0.00616143 93-288,350-460 93-288,350-460
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 0.000554349 479-677 479-677

diff --git a/build-test-data/resolve_hits/eg_raw_score.out b/build-test-data/resolve_hits/eg_raw_score.out
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved
 443cb81e8e280e529de69ef113974208 3ifqB00_round_3 0.00616143 93-288,350-460 93-288,350-460
 443cb81e8e280e529de69ef113974208 4ev8A00_round_3 0.000554349 479-677 479-677

diff --git a/build-test-data/resolve_hits/hmm_coverage/hmm_coverage.out.cov_all b/build-test-data/resolve_hits/hmm_coverage/hmm_coverage.out.cov_all
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 hslu dc_aad93948e696af9dbecc095946367e64 338.5 6-183,234-350 6-183,234-350 1.4e-105 1.4e-98
 hslu 1e94E03-i1 128.9 353-460 353-460 4.3e-42 4.3e-35
diff --git a/build-test-data/resolve_hits/hmm_coverage/hmm_coverage.out.cov_both b/build-test-data/resolve_hits/hmm_coverage/hmm_coverage.out.cov_both
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 hslu 5ji2E02-i1 37.3 114-199 114-199 1.5e-13 1.5e-06
 hslu 1im2A02-i1 20.9 227-260 227-260 2.1e-08 0.21

diff --git a/build-test-data/resolve_hits/hmm_coverage/hmm_coverage.out.cov_dc b/build-test-data/resolve_hits/hmm_coverage/hmm_coverage.out.cov_dc
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 hslu 1e94E01-i1 139.6 6-126 6-126 5e-45 5e-38
 hslu 1e94E01-i1 118.1 233-350 233-350 2e-38 2e-31

diff --git a/build-test-data/resolve_hits/hmm_coverage/hmm_coverage.out.cov_neither b/build-test-data/resolve_hits/hmm_coverage/hmm_coverage.out.cov_neither
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 hslu dc_84fb84fc3c088a560cce01384047eba4 188.2 9-151 9-151 9.7e-60 9.7e-53
 hslu dc_84fb84fc3c088a560cce01384047eba4 171.2 183-350 183-350 1.5e-54 1.5e-47

diff --git a/build-test-data/resolve_hits/hmmscan/p53_p63.hmmscan.out b/build-test-data/resolve_hits/hmmscan/p53_p63.hmmscan.out
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 sp|O15350|P73_HUMAN 2xwcA00-i1 327.6 111-318 111-318 1.6e-100 4.2e-98
 sp|O15350|P73_HUMAN 2eaoA01-i1 11.7 492-548 492-548 0.00087 0.23

diff --git a/build-test-data/resolve_hits/hmmscan/seqs.hmmscan.out b/build-test-data/resolve_hits/hmmscan/seqs.hmmscan.out
@@ -1,3 +1,3 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 casyuv cath|4_2_0|4xurA00/172-332-i4 16.1 6-103 6-103 2e-06 0.014
diff --git a/build-test-data/resolve_hits/hmmscan/seqs.hmmsearch.out b/build-test-data/resolve_hits/hmmscan/seqs.hmmsearch.out
@@ -1,3 +1,3 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 casyuv cath|4_2_0|4xurA00/172-332-i4 16.1 6-103 6-103 6.8e-07 0.014
diff --git a/build-test-data/resolve_hits/hmmscan/single_sequence.hmmscan.out.out b/build-test-data/resolve_hits/hmmscan/single_sequence.hmmscan.out.out
@@ -1,4 +1,4 @@
-# Generated by cath-resolve-hits, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
+# Generated by cath-resolve-hits vX.X.X-X-XXXXXXXX, one of the cath-tools (https://github.com/UCLOrengoGroup/cath-tools)
 #FIELDS query-id match-id score boundaries resolved cond-evalue indp-evalue
 tr|A0A0Q0Y989|A0A0Q0Y989_9BACI 3.20.20.10/FF/9715 221.5 9-217 9-217 1.3e-68 4.4e-65
 tr|A0A0Q0Y989|A0A0Q0Y989_9BACI 2.40.37.10/FF/6607 170 218-369 218-369 2.9e-53 1e-49