minor fixes

tamerh · Dec 5, 2019 · 32b3953 · 32b3953
1 parent 2bec101
commit 32b3953
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Showing 3 changed files with 9 additions and 2 deletions.
diff --git a/scripts/data/data.sh b/scripts/data/data.sh
@@ -95,6 +95,10 @@ clearConfs
 # ./biobtree -d hgnc --idx cacheset1 update
 # prepCache "set1"
 
+### CACHE 0 small demo dataset for biobtreeR ~ 36 MB db size
+./biobtree -d go,hgnc,uniprot,ensembl,interpro --uniprot.file ../../test_data/RdemoData/uniprot_sample.xml.gz --interpro.file ../../test_data/RdemoData/interpro_sample.xml.gz --ensembl.file ../../test_data/RdemoData/human.chr.21.gff3.gz --go.file ../../test_data/RdemoData/go_sample.owl -tax 9606 -idx demo update
+prepCache "demo" "36000000"
+
 ### CACHE 1 datasets with above ensembl genomes except mouse strains. ~ 5.2 db size
 
 ./biobtree -d hgnc,hmdb,uniprot,taxonomy,go,efo,eco,chebi,interpro -tax 9606,10090,4932,3702,7227,6239,562,511145,83333,7955,9031,10116 -x --skip-ensembl -idx cacheset1 update
@@ -110,5 +114,4 @@ prepCache "set2" "4100000000"
 ./biobtree -d hgnc,hmdb,uniprot,taxonomy,go,efo,eco,chebi,interpro -x -idx cacheset3 update
 prepCache "set3" "3600000000"
 
-
 clearConfs
diff --git a/scripts/release.bat b/scripts/release.bat
@@ -10,4 +10,4 @@ IF EXIST [biobtree_Windwos_64bit.zip] (
 
 go build
 
-7z.exe a biobtree_Windwos_64bit.zip biobtree.exe
+7z.exe a biobtree_Windows_64bit.zip biobtree.exe
diff --git a/update/update.go b/update/update.go
@@ -113,6 +113,10 @@ func NewDataUpdate(datasets map[string]bool, targetDatasets, ensemblSpecies, ens
 		}
 	}
 
+	if orthologsAll {
+		orthologs = true
+	}
+
 	return &DataUpdate{
 		invalidXrefs:           util.NewHashMap(300),
 		sampleXrefs:            util.NewHashMap(400),
Original file line number	Diff line number	Diff line change
Expand Up		@@ -10,4 +10,4 @@ IF EXIST [biobtree_Windwos_64bit.zip] (

		go build

		7z.exe a biobtree_Windwos_64bit.zip biobtree.exe
		7z.exe a biobtree_Windows_64bit.zip biobtree.exe