Skip to content
Snippets Groups Projects
Commit 9af65650 authored by Alessandro Vullo's avatar Alessandro Vullo
Browse files

[ENSCORESW-2247]. Should default to NULL.

parent 03d4bb63
No related branches found
No related tags found
No related merge requests found
Hide whitespace changes
Inline Side-by-side
modules/t/test-genome-DBs/homo_sapiens/core/analysis.txt
+ 15
− 15
View file @ 9af65650
......@@ -15,21 +15,21 @@
1282 2002-08-12 14:52:26 ensembl 1 ensembl 1 Gene_Builder ensembl gene
1290 2002-08-12 14:52:26 refseq_cdna human_mRNA 1 exonerate_e2g 1 FilterESTs_and_E2G exonerate gene
1291 2002-08-12 14:52:26 embl_vertrna human_mRNA 1 exonerate_e2g 1 FilterESTs_and_E2G exonerate gene
49 0000-00-00 00:00:00 Pfam Pfam 1 /data/blastdb/Ensembl/Pfam_ls;/data/blastdb/Ensembl/Pfam_fs /nfs/farm/Worms/bin/hmmpfam 1 /nfs/farm/Worms/bin/hmmpfam Pfam 1 PFAM domain
40 0000-00-00 00:00:00 prints prints NULL /acari/analysis/iprscan/data/prints.pval /acari/analysis/iprscan/bin/OSF1/FingerPRINTScan NULL /acari/analysis/iprscan/bin/OSF1/FingerPRINTScan NULL Prints NULL PRINTS domain
41 0000-00-00 00:00:00 pfscan pfscan NULL /acari/analysis/iprscan/data/prosite_prerelease.prf /acari/analysis/iprscan/bin/OSF1/pfscan NULL /acari/analysis/iprscan/bin/OSF1/pfscan NULL Profile NULL PROFILE domain
43 0000-00-00 00:00:00 Signalp signal_peptide NULL NULL /usr/local/ensembl/bin/signalp NULL /usr/local/ensembl/bin/signalp NULL Signalp NULL Signalp annot
46 0000-00-00 00:00:00 tmhmm transmembrane NULL NULL /acari/work1/mongin/src/pipeline4anopheles/scripts/protein_pipeline/run_tmhmm NULL /acari/work1/mongin/src/pipeline4anopheles/scripts/protein_pipeline/run_tmhmm NULL Tmhmm NULL Tmhmm annot
45 0000-00-00 00:00:00 ncoils coiled_coil NULL NULL /usr/local/ensembl/bin/ncoils NULL /usr/local/ensembl/bin/ncoils NULL ncoils NULL ncoils annot
44 0000-00-00 00:00:00 Seg low_complexity NULL NULL /usr/local/ensembl/bin/seg NULL /usr/local/ensembl/bin/seg NULL Seg NULL Seg annot
42 0000-00-00 00:00:00 scanprosite prosite NULL /acari/analysis/iprscan/data/prosite.patterns /acari/analysis/iprscan/bin/scanregexpf.pl /acari/analysis/iprscan/data/confirm.pat /acari/analysis/iprscan/bin/scanregexpf.pl Prosite NULL PROSITE domain
71 0000-00-00 00:00:00 Superfamily Superfamily 1 /data/blastdb/Ensembl/sam/superfamily /acari/work1/mongin/superfamily/superfamily.pl 1 /acari/work1/mongin/superfamily/superfamily.pl Superfamily 1 Superfamily annot
1292 0000-00-00 00:00:00 SNPDensity \N \N \N \N \N \N \N \N \N \N \N
1293 0000-00-00 00:00:00 RepeatCoverage \N \N \N \N \N \N \N \N \N \N \N
1500 0000-00-00 00:00:00 miRanda \N \N \N \N \N \N \N \N \N \N \N
1501 0000-00-00 00:00:00 cisred \N \N \N \N \N \N \N \N \N \N \N
1502 0000-00-00 00:00:00 cisred_search \N \N \N \N \N \N \N \N \N \N \N
1503 0000-00-00 00:00:00 DitagAlign \N \N \N \N \N \N \N \N \N \N \N
49 \N Pfam Pfam 1 /data/blastdb/Ensembl/Pfam_ls;/data/blastdb/Ensembl/Pfam_fs /nfs/farm/Worms/bin/hmmpfam 1 /nfs/farm/Worms/bin/hmmpfam Pfam 1 PFAM domain
40 \N prints prints NULL /acari/analysis/iprscan/data/prints.pval /acari/analysis/iprscan/bin/OSF1/FingerPRINTScan NULL /acari/analysis/iprscan/bin/OSF1/FingerPRINTScan NULL Prints NULL PRINTS domain
41 \N pfscan pfscan NULL /acari/analysis/iprscan/data/prosite_prerelease.prf /acari/analysis/iprscan/bin/OSF1/pfscan NULL /acari/analysis/iprscan/bin/OSF1/pfscan NULL Profile NULL PROFILE domain
43 \N Signalp signal_peptide NULL NULL /usr/local/ensembl/bin/signalp NULL /usr/local/ensembl/bin/signalp NULL Signalp NULL Signalp annot
46 \N tmhmm transmembrane NULL NULL /acari/work1/mongin/src/pipeline4anopheles/scripts/protein_pipeline/run_tmhmm NULL /acari/work1/mongin/src/pipeline4anopheles/scripts/protein_pipeline/run_tmhmm NULL Tmhmm NULL Tmhmm annot
45 \N ncoils coiled_coil NULL NULL /usr/local/ensembl/bin/ncoils NULL /usr/local/ensembl/bin/ncoils NULL ncoils NULL ncoils annot
44 \N Seg low_complexity NULL NULL /usr/local/ensembl/bin/seg NULL /usr/local/ensembl/bin/seg NULL Seg NULL Seg annot
42 \N scanprosite prosite NULL /acari/analysis/iprscan/data/prosite.patterns /acari/analysis/iprscan/bin/scanregexpf.pl /acari/analysis/iprscan/data/confirm.pat /acari/analysis/iprscan/bin/scanregexpf.pl Prosite NULL PROSITE domain
71 \N Superfamily Superfamily 1 /data/blastdb/Ensembl/sam/superfamily /acari/work1/mongin/superfamily/superfamily.pl 1 /acari/work1/mongin/superfamily/superfamily.pl Superfamily 1 Superfamily annot
1292 \N SNPDensity \N \N \N \N \N \N \N \N \N \N \N
1293 \N RepeatCoverage \N \N \N \N \N \N \N \N \N \N \N
1500 \N miRanda \N \N \N \N \N \N \N \N \N \N \N
1501 \N cisred \N \N \N \N \N \N \N \N \N \N \N
1502 \N cisred_search \N \N \N \N \N \N \N \N \N \N \N
1503 \N DitagAlign \N \N \N \N \N \N \N \N \N \N \N
8405 2009-05-14 15:43:42 havana NULL NULL NULL NULL NULL NULL NULL NULL NULL NULL NULL
8406 2009-06-01 09:01:22 xrefexoneratedna NULL NULL NULL NULL NULL NULL NULL NULL NULL NULL NULL
8407 2007-09-07 12:01:22 est2genome_human_havana NULL 10-Nov-10 (105) NULL NULL NULL NULL ori_analysis => Est2genome_human_raw, mode => single ClusterDepthFilter NULL EST_Human similarity
......
modules/t/test-genome-DBs/homo_sapiens/empty/analysis.txt
+ 15
− 15
View file @ 9af65650
......@@ -15,19 +15,19 @@
1282 2002-08-12 14:52:26 ensembl 1 ensembl 1 Gene_Builder ensembl gene
1290 2002-08-12 14:52:26 refseq_cdna human_mRNA 1 exonerate_e2g 1 FilterESTs_and_E2G exonerate gene
1291 2002-08-12 14:52:26 embl_vertrna human_mRNA 1 exonerate_e2g 1 FilterESTs_and_E2G exonerate gene
49 0000-00-00 00:00:00 Pfam Pfam 1 /data/blastdb/Ensembl/Pfam_ls;/data/blastdb/Ensembl/Pfam_fs /nfs/farm/Worms/bin/hmmpfam 1 /nfs/farm/Worms/bin/hmmpfam Pfam 1 PFAM domain
40 0000-00-00 00:00:00 prints prints NULL /acari/analysis/iprscan/data/prints.pval /acari/analysis/iprscan/bin/OSF1/FingerPRINTScan NULL /acari/analysis/iprscan/bin/OSF1/FingerPRINTScan NULL Prints NULL PRINTS domain
41 0000-00-00 00:00:00 pfscan pfscan NULL /acari/analysis/iprscan/data/prosite_prerelease.prf /acari/analysis/iprscan/bin/OSF1/pfscan NULL /acari/analysis/iprscan/bin/OSF1/pfscan NULL Profile NULL PROFILE domain
43 0000-00-00 00:00:00 Signalp signal_peptide NULL NULL /usr/local/ensembl/bin/signalp NULL /usr/local/ensembl/bin/signalp NULL Signalp NULL Signalp annot
46 0000-00-00 00:00:00 tmhmm transmembrane NULL NULL /acari/work1/mongin/src/pipeline4anopheles/scripts/protein_pipeline/run_tmhmm NULL /acari/work1/mongin/src/pipeline4anopheles/scripts/protein_pipeline/run_tmhmm NULL Tmhmm NULL Tmhmm annot
45 0000-00-00 00:00:00 ncoils coiled_coil NULL NULL /usr/local/ensembl/bin/ncoils NULL /usr/local/ensembl/bin/ncoils NULL ncoils NULL ncoils annot
44 0000-00-00 00:00:00 Seg low_complexity NULL NULL /usr/local/ensembl/bin/seg NULL /usr/local/ensembl/bin/seg NULL Seg NULL Seg annot
42 0000-00-00 00:00:00 scanprosite prosite NULL /acari/analysis/iprscan/data/prosite.patterns /acari/analysis/iprscan/bin/scanregexpf.pl /acari/analysis/iprscan/data/confirm.pat /acari/analysis/iprscan/bin/scanregexpf.pl Prosite NULL PROSITE domain
71 0000-00-00 00:00:00 Superfamily Superfamily 1 /data/blastdb/Ensembl/sam/superfamily /acari/work1/mongin/superfamily/superfamily.pl 1 /acari/work1/mongin/superfamily/superfamily.pl Superfamily 1 Superfamily annot
49 \N Pfam Pfam 1 /data/blastdb/Ensembl/Pfam_ls;/data/blastdb/Ensembl/Pfam_fs /nfs/farm/Worms/bin/hmmpfam 1 /nfs/farm/Worms/bin/hmmpfam Pfam 1 PFAM domain
40 \N prints prints NULL /acari/analysis/iprscan/data/prints.pval /acari/analysis/iprscan/bin/OSF1/FingerPRINTScan NULL /acari/analysis/iprscan/bin/OSF1/FingerPRINTScan NULL Prints NULL PRINTS domain
41 \N pfscan pfscan NULL /acari/analysis/iprscan/data/prosite_prerelease.prf /acari/analysis/iprscan/bin/OSF1/pfscan NULL /acari/analysis/iprscan/bin/OSF1/pfscan NULL Profile NULL PROFILE domain
43 \N Signalp signal_peptide NULL NULL /usr/local/ensembl/bin/signalp NULL /usr/local/ensembl/bin/signalp NULL Signalp NULL Signalp annot
46 \N tmhmm transmembrane NULL NULL /acari/work1/mongin/src/pipeline4anopheles/scripts/protein_pipeline/run_tmhmm NULL /acari/work1/mongin/src/pipeline4anopheles/scripts/protein_pipeline/run_tmhmm NULL Tmhmm NULL Tmhmm annot
45 \N ncoils coiled_coil NULL NULL /usr/local/ensembl/bin/ncoils NULL /usr/local/ensembl/bin/ncoils NULL ncoils NULL ncoils annot
44 \N Seg low_complexity NULL NULL /usr/local/ensembl/bin/seg NULL /usr/local/ensembl/bin/seg NULL Seg NULL Seg annot
42 \N scanprosite prosite NULL /acari/analysis/iprscan/data/prosite.patterns /acari/analysis/iprscan/bin/scanregexpf.pl /acari/analysis/iprscan/data/confirm.pat /acari/analysis/iprscan/bin/scanregexpf.pl Prosite NULL PROSITE domain
71 \N Superfamily Superfamily 1 /data/blastdb/Ensembl/sam/superfamily /acari/work1/mongin/superfamily/superfamily.pl 1 /acari/work1/mongin/superfamily/superfamily.pl Superfamily 1 Superfamily annot
119 2006-03-14 15:48:36 XrefExonerateDNA \N \N \N \N \N \N \N \N \N \N \N
1292 0000-00-00 00:00:00 SNPDensity \N \N \N \N \N \N \N \N \N \N \N
1293 0000-00-00 00:00:00 RepeatCoverage \N \N \N \N \N \N \N \N \N \N \N
1500 0000-00-00 00:00:00 miRanda \N \N \N \N \N \N \N \N \N \N \N
1501 0000-00-00 00:00:00 cisred \N \N \N \N \N \N \N \N \N \N \N
1502 0000-00-00 00:00:00 cisred_search \N \N \N \N \N \N \N \N \N \N \N
1503 0000-00-00 00:00:00 DitagAlign \N \N \N \N \N \N \N \N \N \N \N
1292 \N SNPDensity \N \N \N \N \N \N \N \N \N \N \N
1293 \N RepeatCoverage \N \N \N \N \N \N \N \N \N \N \N
1500 \N miRanda \N \N \N \N \N \N \N \N \N \N \N
1501 \N cisred \N \N \N \N \N \N \N \N \N \N \N
1502 \N cisred_search \N \N \N \N \N \N \N \N \N \N \N
1503 \N DitagAlign \N \N \N \N \N \N \N \N \N \N \N
modules/t/test-genome-DBs/homo_sapiens/patch/analysis.txt
+ 1
− 1
View file @ 9af65650
......@@ -4,7 +4,7 @@
8408 2007-09-07 12:01:22 est2genome_human_havana \N 10-Nov-10 (105) \N \N \N \N ori_analysis => Est2genome_human_raw, mode => single ClusterDepthFilter \N EST_Human similarity
8409 2007-09-07 12:01:22 vertrna_havana \N 10-Nov-10 (105) \N \N \N \N ori_analysis => vertrna_raw, mode => single, no_filter => 9606 ClusterDepthFilter \N vertebrate_mRNA similarity
8410 2010-09-30 09:17:16 human_cdna2genome \N \N \N \N \N /nfs/users/nfs_j/jhv/bin/exonerate.hacked.cdna2genome \N Exonerate2Genes \N \N \N
8411 0000-00-00 00:00:00 human_cdna \N \N \N exonerate 0.9.0 /usr/local/ensembl/bin/exonerate-0.9.0 \N Exonerate2Genes \N Exonerate similarity
8411 \N human_cdna \N \N \N exonerate 0.9.0 /usr/local/ensembl/bin/exonerate-0.9.0 \N Exonerate2Genes \N Exonerate similarity
8412 2007-09-07 12:01:22 uniprot_sw_havana \N 2010_11 \N \N \N \N percentid_cutoff => 40, ori_analysis => Uniprot_raw, hit_db => Swissprot, mode => single DepthFilter \N SwissProt \N
8413 2009-03-11 17:25:55 human_protein \N refseq_40,uniprot_2010_07 \N \N \N \N \N BestTargetted \N \N \N
8414 2007-09-07 12:01:22 uniprot_tr_havana \N 2010_11 \N \N \N \N percentid_cutoff => 40, ori_analysis => Uniprot_raw, hit_db => TrEMBL, mode => single DepthFilter \N TrEMBL \N
......
modules/t/test-genome-DBs/polyploidy/core/analysis.txt
+ 2
− 2
View file @ 9af65650
......@@ -10,8 +10,8 @@
200 2014-11-26 14:54:06 interpro2pathway InterPro2Pathway \N \N interpro2pathway \N \N \N \N \N \N \N
196 2014-11-26 14:54:03 signalp SignalP \N \N signalp \N \N \N \N \N \N \N
191 2014-11-26 14:53:59 scanprosite Prosite_patterns 20.105 \N scanprosite \N \N \N \N \N \N \N
45 0000-00-00 00:00:00 wheat_snp_a \N \N \N \N \N \N \N \N \N \N \N
46 0000-00-00 00:00:00 wheat_snp_b \N \N \N \N \N \N \N \N \N \N \N
45 \N wheat_snp_a \N \N \N \N \N \N \N \N \N \N \N
46 \N wheat_snp_b \N \N \N \N \N \N \N \N \N \N \N
136 2013-11-16 16:36:35 xrefexoneratedna \N \N \N \N \N \N \N \N \N \N \N
137 2013-11-16 16:36:35 xrefexonerateprotein \N \N \N \N \N \N \N \N \N \N \N
138 2013-11-16 16:49:20 xrefchecksum \N \N \N \N \N \N \N \N \N \N \N
......
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment