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Commit 9bdb8407 authored by Magali Ruffier's avatar Magali Ruffier
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some schema patching

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modules/t/test-genome-DBs/circ/core/meta.txt
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99 \N patch patch_84_85_b.sql|remove_duplicated_key
100 \N patch patch_85_86_a.sql|schema_version
101 \N patch patch_85_86_b.sql|add dna_align_feature_attrib table
102 \N patch patch_85_86_c.sql|meta_case_insensitive
modules/t/test-genome-DBs/homo_sapiens/core/meta.txt
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138 \N patch patch_84_85_b.sql|remove_duplicated_key
146 \N patch patch_85_86_a.sql|schema_version
147 \N patch patch_85_86_b.sql|add dna_align_feature_attrib table
148 \N patch patch_85_86_c.sql|meta_case_insensitive
modules/t/test-genome-DBs/homo_sapiens/empty/meta.txt
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......@@ -78,3 +78,4 @@
127 \N patch patch_84_85_b.sql|remove_duplicated_key
128 \N patch patch_85_86_a.sql|schema_version
129 \N patch patch_85_86_b.sql|add dna_align_feature_attrib table
130 \N patch patch_85_86_c.sql|meta_case_insensitive
modules/t/test-genome-DBs/homo_sapiens/patch/meta.txt
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......@@ -83,3 +83,4 @@
2090 \N patch patch_84_85_b.sql|remove_duplicated_key
2091 \N patch patch_85_86_a.sql|schema_version
2092 \N patch patch_85_86_b.sql|add dna_align_feature_attrib table
2093 \N patch patch_85_86_c.sql|meta_case_insensitive
modules/t/test-genome-DBs/mapping/core/meta.txt
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......@@ -39,3 +39,4 @@
132 \N patch patch_84_85_b.sql|remove_duplicated_key
133 \N patch patch_85_86_a.sql|schema_version
134 \N patch patch_85_86_b.sql|add dna_align_feature_attrib table
135 \N patch patch_85_86_c.sql|meta_case_insensitive
modules/t/test-genome-DBs/multi/compara/gene_member.txt
+ 49
− 49
View file @ 9bdb8407
100000065 ENSTNIG00000020505 0 ENSEMBLGENE 99883 65 100000065 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 4514314 3306094 3306168 1 SNORD2 0 1 1 57 2 0
100002261 ENSTRUG00000019469 0 ENSEMBLGENE 31033 4 100002260 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 36722 268619 268692 1 SNORD2 0 1 1 58 1 0
100002264 ENSTRUG00000019394 0 ENSEMBLGENE 31033 4 100002264 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 36722 269022 269095 1 SNORD2 0 1 1 48 1 0
100003686 ENSTNIG00000020529 0 ENSEMBLGENE 99883 65 100003686 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 4514338 52669397 52669470 -1 SNORD2 0 1 1 48 2 0
100003687 ENSTNIG00000020519 0 ENSEMBLGENE 99883 65 100003688 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 4514338 52669729 52669803 -1 SNORD2 0 1 1 57 2 0
100008184 ENSGACG00000022790 0 ENSEMBLGENE 69293 36 100008184 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 2039125 9224992 9225064 1 SNORD2 0 1 1 58 1 0
100008186 ENSGACG00000022791 0 ENSEMBLGENE 69293 36 100008186 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 2039125 9225550 9225621 1 SNORD2 0 1 1 48 1 0
100009977 ENSPPYG00000028034 0 ENSEMBLGENE 9601 60 100009977 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 4346076 190574508 190574576 1 SNORD2 0 1 1 45 1 0
100016849 ENSORLG00000021574 0 ENSEMBLGENE 8090 37 100016849 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 2039164 14653720 14653794 1 SNORD2 0 1 1 58 1 0
100016850 ENSORLG00000021634 0 ENSEMBLGENE 8090 37 100016850 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 2039164 14654245 14654320 1 SNORD2 0 1 1 48 1 0
100029371 ENSMMUG00000036232 0 ENSEMBLGENE 9544 31 100029371 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 1045569 164954481 164954549 1 SNORD2 0 1 1 33 3 0
100033919 ENSMMUG00000037192 0 ENSEMBLGENE 9544 31 100033919 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 1045563 179142348 179142416 1 SNORD2 0 1 1 44 3 0
100046335 ENSTGUG00000018017 0 ENSEMBLGENE 59729 87 100046335 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 12160504 18582628 18582698 1 SNORD2 0 1 1 58 0 0
100047101 ENSOANG00000027382 0 ENSEMBLGENE 9258 43 100047100 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 2175916 513 593 -1 SNORD2 0 1 1 58 0 0
100054945 ENSXETG00000029617 0 ENSEMBLGENE 8364 116 100054945 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13094385 381059 381128 -1 SNORD2 0 1 1 49 1 0
100054946 ENSXETG00000029793 0 ENSEMBLGENE 8364 116 100054946 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13094385 385005 385076 -1 SNORD2 0 1 1 58 1 0
100065013 ENSBTAG00000044311 0 ENSEMBLGENE 9913 122 100065013 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13200476 81062767 81062835 -1 SNORD2 0 1 1 47 0 0
100071636 ENSGGOG00000032407 0 ENSEMBLGENE 9595 123 100071636 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13203820 188240400 188240468 1 SNORD2 0 1 1 45 1 0
100087720 ENSOCUG00000023265 0 ENSEMBLGENE 9986 108 100088181 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 12966556 78843854 78843921 -1 SNORD2 0 1 1 45 2 0
100093454 ENSACAG00000018292 0 ENSEMBLGENE 28377 111 100094079 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13049389 118621 118692 -1 SNORD2 0 1 1 58 0 0
100099604 ENSMUSG00000088524 0 ENSEMBLGENE 10090 134 100100368 small nucleolar RNA, C/D box 2 [Source:MGI Symbol;Acc:MGI:3819528] 13705560 23108953 23109021 1 Snord2 0 1 1 45 0 0
100099742 ENSLACG00000021456 0 ENSEMBLGENE 7897 129 100100505 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13636391 2411690 2411759 1 SNORD2 0 1 1 49 0 0
100113582 ENSPTRG00000037854 0 ENSEMBLGENE 9598 125 100114678 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13211504 190852362 190852430 1 SNORD2 0 1 1 45 1 0
100123418 ENSAPLG00000000068 0 ENSEMBLGENE 8839 144 100124975 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13785441 276440 276510 1 SNORD2 0 1 1 58 0 0
100130549 ENSGALG00000025617 0 ENSEMBLGENE 9031 142 100132105 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13783415 15672950 15673019 1 SNORD2 0 1 1 58 0 0
100137301 ENSONIG00000022215 0 ENSEMBLGENE 8128 130 100138857 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13688462 12140155 12140229 1 SNORD2 0 1 1 58 1 0
100137304 ENSONIG00000022099 0 ENSEMBLGENE 8128 130 100138860 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13688462 12140712 12140786 1 SNORD2 0 1 1 48 1 0
100151878 ENSMGAG00000000091 0 ENSEMBLGENE 9103 112 100153475 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13055709 16212140 16212209 1 SNORD2 0 1 1 58 0 0
100162160 ENSCAFG00000027814 0 ENSEMBLGENE 9615 135 100164038 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13705633 19356118 19356186 1 SNORD2 0 1 1 45 5 0
100164895 ENSMEUG00000017324 0 ENSEMBLGENE 9315 91 100166821 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 12753243 17043 17112 1 SNORD2 0 1 1 58 0 0
100176264 ENSG00000238707 0 ENSEMBLGENE 9606 150 100178494 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13955520 56595963 56596031 -1 SNORD2 0 1 1 45 1 0
100182621 ENSFALG00000015549 0 ENSEMBLGENE 59894 145 100185036 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13862672 11103001 11103071 1 SNORD2 0 1 1 58 0 0
100184508 ENSCSAG00000026646 0 ENSEMBLGENE 60711 153 100186963 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14022783 81076307 81076375 1 SNORD2 0 1 1 44 2 0
100191757 ENSOGAG00000023959 0 ENSEMBLGENE 30611 124 100194492 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13203897 9863584 9863651 -1 SNORD2 0 1 1 45 0 0
100204308 ENSPANG00000010082 0 ENSEMBLGENE 9555 151 100207705 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13955574 157844257 157844325 1 SNORD2 0 1 1 45 1 0
100215815 ENSDARG00000082639 0 ENSEMBLGENE 7955 154 100220003 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14026375 7922554 7922624 1 SNORD2 0 1 1 48 2 0
100215819 ENSDARG00000083056 0 ENSEMBLGENE 7955 154 100220007 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14026375 7922934 7923004 1 SNORD2 0 1 1 42 2 0
100215833 ENSDARG00000080523 0 ENSEMBLGENE 7955 154 100220025 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14026375 7925865 7925936 1 SNORD2 0 1 1 58 2 0
100220485 ENSCSAG00000027032 0 ENSEMBLGENE 60711 153 100225049 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14022801 79602435 79602503 1 SNORD2 0 1 1 33 2 0
100223263 ENSLOCG00000019102 0 ENSEMBLGENE 7918 148 100227949 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13902789 461949 462018 1 SNORD2 0 1 1 58 0 0
100226195 ENSOARG00000022667 0 ENSEMBLGENE 9940 147 100231022 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13902799 198671751 198671819 -1 SNORD2 0 1 1 47 1 0
100235573 ENSMODG00000026826 0 ENSEMBLGENE 13616 46 100240803 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 3570454 206772418 206772486 -1 SNORD2 0 1 1 58 0 0
100238959 ENSPFOG00000021602 0 ENSEMBLGENE 48698 152 100244296 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14018859 380507 380583 1 SNORD2 0 1 1 58 1 0
100238967 ENSPFOG00000021430 0 ENSEMBLGENE 48698 152 100244304 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14018859 381062 381137 1 SNORD2 0 1 1 48 1 0
100242730 ENSSSCG00000018746 0 ENSEMBLGENE 9823 132 100248134 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13701661 133974703 133974771 1 SNORD2 0 1 1 45 2 0
100246488 ENSECAG00000027514 0 ENSEMBLGENE 9796 61 100252028 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 4346125 24791922 24791988 1 SNORD2 0 1 1 45 1 0
100263700 ENSRNOG00000053621 0 ENSEMBLGENE 10116 155 100270056 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14026979 81378396 81378464 -1 SNORD2 0 1 1 45 0 0
100277999 ENSG00000174852 0 ENSEMBLGENE 9606 150 100285954 small nucleolar RNA, C/D box 2 [Source:HGNC Symbol;Acc:HGNC:32678] 13955539 186784796 186784864 1 SNORD2 0 1 1 45 1 0
100281324 ENSTSYG00000021671 0 ENSEMBLGENE 9478 82 100289437 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 11302777 17893 17961 1 SNORD2 0 1 1 45 0 0
100000065 ENSTNIG00000020505 0 ENSEMBLGENE 99883 65 100000065 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 4514314 3306094 3306168 1 SNORD2
100002261 ENSTRUG00000019469 0 ENSEMBLGENE 31033 4 100002260 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 36722 268619 268692 1 SNORD2
100002264 ENSTRUG00000019394 0 ENSEMBLGENE 31033 4 100002264 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 36722 269022 269095 1 SNORD2
100003686 ENSTNIG00000020529 0 ENSEMBLGENE 99883 65 100003686 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 4514338 52669397 52669470 -1 SNORD2
100003687 ENSTNIG00000020519 0 ENSEMBLGENE 99883 65 100003688 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 4514338 52669729 52669803 -1 SNORD2
100008184 ENSGACG00000022790 0 ENSEMBLGENE 69293 36 100008184 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 2039125 9224992 9225064 1 SNORD2
100008186 ENSGACG00000022791 0 ENSEMBLGENE 69293 36 100008186 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 2039125 9225550 9225621 1 SNORD2
100009977 ENSPPYG00000028034 0 ENSEMBLGENE 9601 60 100009977 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 4346076 190574508 190574576 1 SNORD2
100016849 ENSORLG00000021574 0 ENSEMBLGENE 8090 37 100016849 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 2039164 14653720 14653794 1 SNORD2
100016850 ENSORLG00000021634 0 ENSEMBLGENE 8090 37 100016850 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 2039164 14654245 14654320 1 SNORD2
100029371 ENSMMUG00000036232 0 ENSEMBLGENE 9544 31 100029371 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 1045569 164954481 164954549 1 SNORD2
100033919 ENSMMUG00000037192 0 ENSEMBLGENE 9544 31 100033919 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 1045563 179142348 179142416 1 SNORD2
100046335 ENSTGUG00000018017 0 ENSEMBLGENE 59729 87 100046335 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 12160504 18582628 18582698 1 SNORD2
100047101 ENSOANG00000027382 0 ENSEMBLGENE 9258 43 100047100 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 2175916 513 593 -1 SNORD2
100054945 ENSXETG00000029617 0 ENSEMBLGENE 8364 116 100054945 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13094385 381059 381128 -1 SNORD2
100054946 ENSXETG00000029793 0 ENSEMBLGENE 8364 116 100054946 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13094385 385005 385076 -1 SNORD2
100065013 ENSBTAG00000044311 0 ENSEMBLGENE 9913 122 100065013 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13200476 81062767 81062835 -1 SNORD2
100071636 ENSGGOG00000032407 0 ENSEMBLGENE 9595 123 100071636 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13203820 188240400 188240468 1 SNORD2
100087720 ENSOCUG00000023265 0 ENSEMBLGENE 9986 108 100088181 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 12966556 78843854 78843921 -1 SNORD2
100093454 ENSACAG00000018292 0 ENSEMBLGENE 28377 111 100094079 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13049389 118621 118692 -1 SNORD2
100099604 ENSMUSG00000088524 0 ENSEMBLGENE 10090 134 100100368 small nucleolar RNA, C/D box 2 [Source:MGI Symbol;Acc:MGI:3819528] 13705560 23108953 23109021 1 Snord2
100099742 ENSLACG00000021456 0 ENSEMBLGENE 7897 129 100100505 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13636391 2411690 2411759 1 SNORD2
100113582 ENSPTRG00000037854 0 ENSEMBLGENE 9598 125 100114678 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13211504 190852362 190852430 1 SNORD2
100123418 ENSAPLG00000000068 0 ENSEMBLGENE 8839 144 100124975 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13785441 276440 276510 1 SNORD2
100130549 ENSGALG00000025617 0 ENSEMBLGENE 9031 142 100132105 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13783415 15672950 15673019 1 SNORD2
100137301 ENSONIG00000022215 0 ENSEMBLGENE 8128 130 100138857 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13688462 12140155 12140229 1 SNORD2
100137304 ENSONIG00000022099 0 ENSEMBLGENE 8128 130 100138860 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13688462 12140712 12140786 1 SNORD2
100151878 ENSMGAG00000000091 0 ENSEMBLGENE 9103 112 100153475 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13055709 16212140 16212209 1 SNORD2
100162160 ENSCAFG00000027814 0 ENSEMBLGENE 9615 135 100164038 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13705633 19356118 19356186 1 SNORD2
100164895 ENSMEUG00000017324 0 ENSEMBLGENE 9315 91 100166821 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 12753243 17043 17112 1 SNORD2
100176264 ENSG00000238707 0 ENSEMBLGENE 9606 150 100178494 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13955520 56595963 56596031 -1 SNORD2
100182621 ENSFALG00000015549 0 ENSEMBLGENE 59894 145 100185036 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13862672 11103001 11103071 1 SNORD2
100184508 ENSCSAG00000026646 0 ENSEMBLGENE 60711 153 100186963 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14022783 81076307 81076375 1 SNORD2
100191757 ENSOGAG00000023959 0 ENSEMBLGENE 30611 124 100194492 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13203897 9863584 9863651 -1 SNORD2
100204308 ENSPANG00000010082 0 ENSEMBLGENE 9555 151 100207705 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13955574 157844257 157844325 1 SNORD2
100215815 ENSDARG00000082639 0 ENSEMBLGENE 7955 154 100220003 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14026375 7922554 7922624 1 SNORD2
100215819 ENSDARG00000083056 0 ENSEMBLGENE 7955 154 100220007 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14026375 7922934 7923004 1 SNORD2
100215833 ENSDARG00000080523 0 ENSEMBLGENE 7955 154 100220025 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14026375 7925865 7925936 1 SNORD2
100220485 ENSCSAG00000027032 0 ENSEMBLGENE 60711 153 100225049 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14022801 79602435 79602503 1 SNORD2
100223263 ENSLOCG00000019102 0 ENSEMBLGENE 7918 148 100227949 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13902789 461949 462018 1 SNORD2
100226195 ENSOARG00000022667 0 ENSEMBLGENE 9940 147 100231022 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13902799 198671751 198671819 -1 SNORD2
100235573 ENSMODG00000026826 0 ENSEMBLGENE 13616 46 100240803 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 3570454 206772418 206772486 -1 SNORD2
100238959 ENSPFOG00000021602 0 ENSEMBLGENE 48698 152 100244296 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14018859 380507 380583 1 SNORD2
100238967 ENSPFOG00000021430 0 ENSEMBLGENE 48698 152 100244304 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14018859 381062 381137 1 SNORD2
100242730 ENSSSCG00000018746 0 ENSEMBLGENE 9823 132 100248134 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 13701661 133974703 133974771 1 SNORD2
100246488 ENSECAG00000027514 0 ENSEMBLGENE 9796 61 100252028 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 4346125 24791922 24791988 1 SNORD2
100263700 ENSRNOG00000053621 0 ENSEMBLGENE 10116 155 100270056 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 14026979 81378396 81378464 -1 SNORD2
100277999 ENSG00000174852 0 ENSEMBLGENE 9606 150 100285954 small nucleolar RNA, C/D box 2 [Source:HGNC Symbol;Acc:HGNC:32678] 13955539 186784796 186784864 1 SNORD2
100281324 ENSTSYG00000021671 0 ENSEMBLGENE 9478 82 100289437 Small nucleolar RNA SNORD2 [Source:RFAM;Acc:RF01299] 11302777 17893 17961 1 SNORD2
modules/t/test-genome-DBs/multi/compara/gene_member_hom_stats.txt 0 → 100644
+ 49
− 0
View file @ 9bdb8407
100000065 default 0 1 1 57 2 0
100002261 default 0 1 1 58 1 0
100002264 default 0 1 1 48 1 0
100003686 default 0 1 1 48 2 0
100003687 default 0 1 1 57 2 0
100008184 default 0 1 1 58 1 0
100008186 default 0 1 1 48 1 0
100009977 default 0 1 1 45 1 0
100016849 default 0 1 1 58 1 0
100016850 default 0 1 1 48 1 0
100029371 default 0 1 1 33 3 0
100033919 default 0 1 1 44 3 0
100046335 default 0 1 1 58 0 0
100047101 default 0 1 1 58 0 0
100054945 default 0 1 1 49 1 0
100054946 default 0 1 1 58 1 0
100065013 default 0 1 1 47 0 0
100071636 default 0 1 1 45 1 0
100087720 default 0 1 1 45 2 0
100093454 default 0 1 1 58 0 0
100099604 default 0 1 1 45 0 0
100099742 default 0 1 1 49 0 0
100113582 default 0 1 1 45 1 0
100123418 default 0 1 1 58 0 0
100130549 default 0 1 1 58 0 0
100137301 default 0 1 1 58 1 0
100137304 default 0 1 1 48 1 0
100151878 default 0 1 1 58 0 0
100162160 default 0 1 1 45 5 0
100164895 default 0 1 1 58 0 0
100176264 default 0 1 1 45 1 0
100182621 default 0 1 1 58 0 0
100184508 default 0 1 1 44 2 0
100191757 default 0 1 1 45 0 0
100204308 default 0 1 1 45 1 0
100215815 default 0 1 1 48 2 0
100215819 default 0 1 1 42 2 0
100215833 default 0 1 1 58 2 0
100220485 default 0 1 1 33 2 0
100223263 default 0 1 1 58 0 0
100226195 default 0 1 1 47 1 0
100235573 default 0 1 1 58 0 0
100238959 default 0 1 1 58 1 0
100238967 default 0 1 1 48 1 0
100242730 default 0 1 1 45 2 0
100246488 default 0 1 1 45 1 0
100263700 default 0 1 1 45 0 0
100277999 default 0 1 1 45 1 0
100281324 default 0 1 1 45 0 0
modules/t/test-genome-DBs/multi/compara/homology.txt
+ 65
− 65
View file @ 9bdb8407
100971935 50908 ortholog_one2one 1 \N \N \N \N \N 40102037 100462673 100184217 \N 100.00
100971951 50958 ortholog_one2one 1 \N \N \N \N \N 40102037 100462672 100184217 \N 100.00
100971983 50884 ortholog_one2one 1 \N \N \N \N \N 40102037 100462671 100184217 \N 100.00
100972047 51020 ortholog_one2one 1 \N \N \N \N \N 40102037 100462670 100184217 \N 100.00
100972055 50961 ortholog_one2one 1 \N \N \N \N \N 40102037 100462670 100184217 \N 100.00
100972095 50920 ortholog_one2one 1 \N \N \N \N \N 40102037 100462669 100184217 \N 100.00
100972259 100019 ortholog_one2one 1 \N \N \N \N \N 40102037 100462668 100184217 \N 100.00
100972309 50950 ortholog_one2one 1 \N \N \N \N \N 40102037 100462668 100184217 \N \N
100972409 50914 ortholog_one2one 1 \N \N \N \N \N 40102037 100462668 100184217 \N \N
100972489 50976 ortholog_one2one 1 \N \N \N \N \N 40102037 100462668 100184217 \N 100.00
100972657 50981 ortholog_one2one 1 \N \N \N \N \N 40102037 100462667 100184217 \N 100.00
100972799 50974 ortholog_one2one 1 \N \N \N \N \N 40102037 100462666 100184217 \N 100.00
100973398 50978 ortholog_one2one 1 \N \N \N \N \N 40102037 100462665 100184217 \N 100.00
100973626 50849 ortholog_one2one 0 \N \N \N \N \N 40102037 100462664 100184217 \N 0.00
100973657 50880 ortholog_one2one 0 \N \N \N \N \N 40102037 100462664 100184217 \N 0.00
100973664 50876 ortholog_one2one 0 \N \N \N \N \N 40102037 100462664 100184217 \N 0.00
100973677 51087 within_species_paralog 1 \N \N \N \N \N 40102037 100462664 100184217 \N \N
100973686 21183 within_species_paralog 1 \N \N \N \N \N 40102037 100462664 100184217 \N \N
100973700 50684 ortholog_one2one 1 \N \N \N \N \N 40102037 100462680 100184217 \N 100.00
100973750 50840 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00
100973760 50682 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00
100973767 50694 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00
100973796 50745 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00
100973826 100049 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00
100973859 51044 ortholog_one2many 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00
100973864 51044 ortholog_one2many 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00
100973878 50716 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N \N
100973887 50700 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00
100973894 50697 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N \N
100973901 50740 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00
100973938 50728 ortholog_one2many 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00
100973949 50725 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00
100973979 50728 ortholog_one2many 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00
100974018 50930 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00
100974440 50888 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00
100974865 50815 within_species_paralog 1 \N \N \N \N \N 40102037 100462642 100184217 \N \N
100978519 50971 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100979187 50902 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100979935 50972 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100980569 50942 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100980934 50946 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100981298 50971 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100981727 50955 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100982199 50960 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100982632 50963 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100983141 50972 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100983577 50924 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100983946 50942 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100984355 50979 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100984728 50971 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100985052 50922 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100985299 50956 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100985605 50892 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100986037 50970 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100986388 50946 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100986709 50948 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100987544 50963 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100987812 51286 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100988112 51286 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100988412 50979 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100988787 50975 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100989148 50922 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100989471 50918 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100989750 50973 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100990017 51286 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N
100971935 50908 ortholog_one2one 1 \N \N \N \N \N 40102037 100462673 100184217 \N 100.00 \N
100971951 50958 ortholog_one2one 1 \N \N \N \N \N 40102037 100462672 100184217 \N 100.00 \N
100971983 50884 ortholog_one2one 1 \N \N \N \N \N 40102037 100462671 100184217 \N 100.00 \N
100972047 51020 ortholog_one2one 1 \N \N \N \N \N 40102037 100462670 100184217 \N 100.00 \N
100972055 50961 ortholog_one2one 1 \N \N \N \N \N 40102037 100462670 100184217 \N 100.00 \N
100972095 50920 ortholog_one2one 1 \N \N \N \N \N 40102037 100462669 100184217 \N 100.00 \N
100972259 100019 ortholog_one2one 1 \N \N \N \N \N 40102037 100462668 100184217 \N 100.00 \N
100972309 50950 ortholog_one2one 1 \N \N \N \N \N 40102037 100462668 100184217 \N \N \N
100972409 50914 ortholog_one2one 1 \N \N \N \N \N 40102037 100462668 100184217 \N \N \N
100972489 50976 ortholog_one2one 1 \N \N \N \N \N 40102037 100462668 100184217 \N 100.00 \N
100972657 50981 ortholog_one2one 1 \N \N \N \N \N 40102037 100462667 100184217 \N 100.00 \N
100972799 50974 ortholog_one2one 1 \N \N \N \N \N 40102037 100462666 100184217 \N 100.00 \N
100973398 50978 ortholog_one2one 1 \N \N \N \N \N 40102037 100462665 100184217 \N 100.00 \N
100973626 50849 ortholog_one2one 0 \N \N \N \N \N 40102037 100462664 100184217 \N 0.00 \N
100973657 50880 ortholog_one2one 0 \N \N \N \N \N 40102037 100462664 100184217 \N 0.00 \N
100973664 50876 ortholog_one2one 0 \N \N \N \N \N 40102037 100462664 100184217 \N 0.00 \N
100973677 51087 within_species_paralog 1 \N \N \N \N \N 40102037 100462664 100184217 \N \N \N
100973686 21183 within_species_paralog 1 \N \N \N \N \N 40102037 100462664 100184217 \N \N \N
100973700 50684 ortholog_one2one 1 \N \N \N \N \N 40102037 100462680 100184217 \N 100.00 \N
100973750 50840 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00 \N
100973760 50682 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00 \N
100973767 50694 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00 \N
100973796 50745 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00 \N
100973826 100049 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00 \N
100973859 51044 ortholog_one2many 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00 \N
100973864 51044 ortholog_one2many 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00 \N
100973878 50716 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N \N \N
100973887 50700 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00 \N
100973894 50697 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N \N \N
100973901 50740 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00 \N
100973938 50728 ortholog_one2many 1 \N \N \N \N \N 40102037 100462663 100184217 \N 0.00 \N
100973949 50725 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00 \N
100973979 50728 ortholog_one2many 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00 \N
100974018 50930 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00 \N
100974440 50888 ortholog_one2one 1 \N \N \N \N \N 40102037 100462663 100184217 \N 100.00 \N
100974865 50815 within_species_paralog 1 \N \N \N \N \N 40102037 100462642 100184217 \N \N \N
100978519 50971 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100979187 50902 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100979935 50972 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100980569 50942 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100980934 50946 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100981298 50971 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100981727 50955 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100982199 50960 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100982632 50963 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100983141 50972 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100983577 50924 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100983946 50942 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100984355 50979 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100984728 50971 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100985052 50922 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100985299 50956 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100985605 50892 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100986037 50970 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100986388 50946 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100986709 50948 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100987544 50963 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100987812 51286 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100988112 51286 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100988412 50979 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100988787 50975 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100989148 50922 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100989471 50918 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100989750 50973 ortholog_one2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
100990017 51286 ortholog_many2many 0 \N \N \N \N \N 40102008 100184217 100184217 \N \N \N
modules/t/test-genome-DBs/multi/compara/meta.txt
+ 2
− 0
View file @ 9bdb8407
......@@ -13,3 +13,5 @@
14 \N patch patch_85_86_a.sql|schema_version
15 \N patch patch_85_86_b.sql|species_tree_root.species_tree
16 \N patch patch_85_86_c.sql|gene_tree_root.species_tree_root_id
17 \N patch patch_85_86_d.sql|homology.high_confidence
18 \N patch patch_85_86_e.sql|gene_member_hom_stats
modules/t/test-genome-DBs/multi/compara/table.sql
+ 17
− 10
View file @ 9bdb8407
......@@ -133,12 +133,6 @@ CREATE TABLE `gene_member` (
`dnafrag_end` int(10) DEFAULT NULL,
`dnafrag_strand` tinyint(4) DEFAULT NULL,
`display_label` varchar(128) DEFAULT NULL,
`families` tinyint(1) unsigned DEFAULT '0',
`gene_trees` tinyint(1) unsigned DEFAULT '0',
`gene_gain_loss_trees` tinyint(1) unsigned DEFAULT '0',
`orthologues` int(10) unsigned DEFAULT '0',
`paralogues` int(10) unsigned DEFAULT '0',
`homoeologues` int(10) unsigned DEFAULT '0',
PRIMARY KEY (`gene_member_id`),
UNIQUE KEY `stable_id` (`stable_id`),
KEY `taxon_id` (`taxon_id`),
......@@ -149,6 +143,18 @@ CREATE TABLE `gene_member` (
KEY `dnafrag_id_end` (`dnafrag_id`,`dnafrag_end`)
) ENGINE=MyISAM AUTO_INCREMENT=100281325 DEFAULT CHARSET=latin1 MAX_ROWS=100000000;
CREATE TABLE `gene_member_hom_stats` (
`gene_member_id` int(10) unsigned NOT NULL,
`collection` varchar(40) NOT NULL,
`families` int(10) unsigned NOT NULL DEFAULT '0',
`gene_trees` tinyint(1) unsigned NOT NULL DEFAULT '0',
`gene_gain_loss_trees` tinyint(1) unsigned NOT NULL DEFAULT '0',
`orthologues` int(10) unsigned NOT NULL DEFAULT '0',
`paralogues` int(10) unsigned NOT NULL DEFAULT '0',
`homoeologues` int(10) unsigned NOT NULL DEFAULT '0',
PRIMARY KEY (`gene_member_id`,`collection`)
) ENGINE=MyISAM DEFAULT CHARSET=latin1;
CREATE TABLE `gene_tree_node` (
`node_id` int(10) unsigned NOT NULL AUTO_INCREMENT,
`parent_id` int(10) unsigned DEFAULT NULL,
......@@ -280,7 +286,7 @@ CREATE TABLE `genomic_align` (
KEY `method_link_species_set_id` (`method_link_species_set_id`),
KEY `dnafrag` (`dnafrag_id`,`method_link_species_set_id`,`dnafrag_start`,`dnafrag_end`),
KEY `node_id` (`node_id`)
) ENGINE=MyISAM DEFAULT CHARSET=latin1 MAX_ROWS=1000000000 AVG_ROW_LENGTH=60;
) ENGINE=MyISAM AUTO_INCREMENT=6770002296671 DEFAULT CHARSET=latin1 MAX_ROWS=1000000000 AVG_ROW_LENGTH=60;
CREATE TABLE `genomic_align_block` (
`genomic_align_block_id` bigint(20) unsigned NOT NULL AUTO_INCREMENT,
......@@ -292,7 +298,7 @@ CREATE TABLE `genomic_align_block` (
`level_id` tinyint(2) unsigned NOT NULL DEFAULT '0',
PRIMARY KEY (`genomic_align_block_id`),
KEY `method_link_species_set_id` (`method_link_species_set_id`)
) ENGINE=MyISAM DEFAULT CHARSET=latin1;
) ENGINE=MyISAM AUTO_INCREMENT=6770001148336 DEFAULT CHARSET=latin1;
CREATE TABLE `genomic_align_tree` (
`node_id` bigint(20) unsigned NOT NULL AUTO_INCREMENT,
......@@ -351,6 +357,7 @@ CREATE TABLE `homology` (
`gene_tree_root_id` int(10) unsigned DEFAULT NULL,
`goc_score` tinyint(3) unsigned DEFAULT NULL,
`wga_coverage` decimal(5,2) DEFAULT NULL,
`is_high_confidence` tinyint(1) DEFAULT NULL,
PRIMARY KEY (`homology_id`),
KEY `method_link_species_set_id` (`method_link_species_set_id`),
KEY `species_tree_node_id` (`species_tree_node_id`),
......@@ -399,7 +406,7 @@ CREATE TABLE `meta` (
PRIMARY KEY (`meta_id`),
UNIQUE KEY `species_key_value_idx` (`species_id`,`meta_key`,`meta_value`(255)),
KEY `species_value_idx` (`species_id`,`meta_value`(255))
) ENGINE=MyISAM AUTO_INCREMENT=17 DEFAULT CHARSET=latin1;
) ENGINE=MyISAM AUTO_INCREMENT=19 DEFAULT CHARSET=latin1;
CREATE TABLE `method_link` (
`method_link_id` int(10) unsigned NOT NULL AUTO_INCREMENT,
......@@ -639,5 +646,5 @@ CREATE TABLE `synteny_region` (
`method_link_species_set_id` int(10) unsigned NOT NULL,
PRIMARY KEY (`synteny_region_id`),
KEY `method_link_species_set_id` (`method_link_species_set_id`)
) ENGINE=MyISAM DEFAULT CHARSET=latin1;
) ENGINE=MyISAM AUTO_INCREMENT=51494 DEFAULT CHARSET=latin1;
modules/t/test-genome-DBs/mus_musculus/core/meta.txt
+ 1
− 0
View file @ 9bdb8407
......@@ -156,3 +156,4 @@
1668 \N patch patch_84_85_b.sql|remove_duplicated_key
1669 \N patch patch_85_86_a.sql|schema_version
1670 \N patch patch_85_86_b.sql|add dna_align_feature_attrib table
1671 \N patch patch_85_86_c.sql|meta_case_insensitive
modules/t/test-genome-DBs/mus_musculus/variation/meta.txt
+ 4
− 1
View file @ 9bdb8407
1 \N schema_type variation
2 \N schema_version 85
2 \N schema_version 86
6 1 species.production_name mus_musculus
15 1 web_config sv_study#Keane 2011 (DGVa study estd118)#Keane 2011#estd118
14 1 web_config set#All failed variants#All failed variants#variation_set_fail_all#failed
......@@ -37,3 +37,6 @@
43 \N patch patch_84_85_e.sql|drop the table tagged_variation_feature
44 \N patch patch_84_85_f.sql|add phenotype_ontology_accession
45 \N patch patch_84_85_g.sql|allow the column description to store more text in the source table
46 \N patch patch_85_86_a.sql|schema version
47 \N patch patch_85_86_b.sql|add qualifier & index to phenotype_onology_accession
48 \N patch patch_85_86_c.sql|add index on study.external_reference
modules/t/test-genome-DBs/mus_musculus/variation/table.sql
+ 7
− 4
View file @ 9bdb8407
......@@ -168,7 +168,7 @@ CREATE TABLE `meta` (
PRIMARY KEY (`meta_id`),
UNIQUE KEY `species_key_value_idx` (`species_id`,`meta_key`,`meta_value`),
KEY `species_value_idx` (`species_id`,`meta_value`)
) ENGINE=MyISAM AUTO_INCREMENT=46 DEFAULT CHARSET=latin1;
) ENGINE=MyISAM AUTO_INCREMENT=49 DEFAULT CHARSET=latin1;
CREATE TABLE `meta_coord` (
`table_name` varchar(40) NOT NULL,
......@@ -238,8 +238,10 @@ CREATE TABLE `phenotype_feature_attrib` (
CREATE TABLE `phenotype_ontology_accession` (
`phenotype_id` int(11) unsigned NOT NULL,
`accession` varchar(255) NOT NULL,
`linked_by_attrib` set('437','438','439','440','441','442') DEFAULT NULL,
PRIMARY KEY (`phenotype_id`,`accession`)
`mapped_by_attrib` set('437','438','439','440','441','442','443','444') DEFAULT NULL,
`mapping_type` enum('is','involves') DEFAULT NULL,
PRIMARY KEY (`phenotype_id`,`accession`),
KEY `accession_idx` (`accession`)
) ENGINE=MyISAM DEFAULT CHARSET=latin1;
CREATE TABLE `population` (
......@@ -477,7 +479,8 @@ CREATE TABLE `study` (
`external_reference` varchar(255) DEFAULT NULL,
`study_type` varchar(255) DEFAULT NULL,
PRIMARY KEY (`study_id`),
KEY `source_idx` (`source_id`)
KEY `source_idx` (`source_id`),
KEY `external_reference_idx` (`external_reference`)
) ENGINE=MyISAM DEFAULT CHARSET=latin1;
CREATE TABLE `submitter_handle` (
......
modules/t/test-genome-DBs/nameless/core/meta.txt
+ 2
− 0
View file @ 9bdb8407
......@@ -76,3 +76,5 @@
130 \N patch patch_84_85_a.sql|schema_version
131 \N patch patch_84_85_b.sql|remove_duplicated_key
132 \N patch patch_85_86_a.sql|schema_version
133 \N patch patch_85_86_b.sql|add dna_align_feature_attrib table
134 \N patch patch_85_86_c.sql|meta_case_insensitive
modules/t/test-genome-DBs/polyploidy/core/meta.txt
+ 1
− 0
View file @ 9bdb8407
......@@ -132,3 +132,4 @@
212 \N patch patch_84_85_b.sql|remove_duplicated_key
213 \N patch patch_85_86_a.sql|schema_version
214 \N patch patch_85_86_b.sql|add dna_align_feature_attrib table
215 \N patch patch_85_86_c.sql|meta_case_insensitive
modules/t/test-genome-DBs/test_collection/core/meta.txt
+ 2
− 0
View file @ 9bdb8407
......@@ -151,3 +151,5 @@
193 \N patch patch_84_85_a.sql|schema_version
194 \N patch patch_84_85_b.sql|remove_duplicated_key
195 \N patch patch_85_86_a.sql|schema_version
196 \N patch patch_85_86_b.sql|add dna_align_feature_attrib table
197 \N patch patch_85_86_c.sql|meta_case_insensitive
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