Commit 8ae8f0d3 authored by Remi  PLANEL's avatar Remi PLANEL
Browse files

Load all strains

parent 8fb93918
......@@ -5,7 +5,7 @@
<sources>
<!-- First gff and then fasta if you want to have the sequence available -->
<!-- <source name="LegioParis-gff" type="legiolist-gff" version="4.1.1">
<source name="LegioParis-gff" type="legiolist-gff" version="4.1.1">
<property name="gff3.taxonId" value="297246"/>
<property name="gff3.seqDataSourceName" value="LegioList LegioParis"/>
<property name="gff3.dataSourceName" value="LegioList"/>
......@@ -41,27 +41,7 @@
<property name="fasta.suffix" value="protein" />
<property name="fasta.includes" value="LegioParis_10-05-2012_LegioList.faa"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
</source> -->
<!-- <source name="LegioParis-ncbi-gff" type="legiolist-gff">
<property name="gff3.taxonId" value="297246"/>
<property name="gff3.seqDataSourceName" value="NCBI LegioParis"/>
<property name="gff3.dataSourceName" value="NCBI"/>
<property name="gff3.seqClsName" value="Chromosome"/>
<property name="gff3.dataSetTitle" value="NCBI Legionella pneumophila str. Paris annotation"/>
<property name="src.data.dir" location="/home/rplanel/projects/legiolist-intermine/data/legiolist/genomes/gff/ncbi/LegioParis"/>
</source>
<source name="LegioParis-ncbi-fasta" type="fasta">
<property name="fasta.taxonId" value="297246"/>
<property name="fasta.className" value="org.intermine.model.bio.Chromosome"/>
<property name="fasta.dataSourceName" value="NCBI"/>
<property name="fasta.dataSetTitle" value="NCBI Legionella pneumophila str. Paris chromosome sequence"/>
<property name="src.data.dir" location="/home/rplanel/projects/legiolist-intermine/data/legiolist/genomes/fasta/ncbi"/>
<property name="fasta.includes" value="GCF_000048645.1_ASM4864v1_genomic.fna"/>
</source>
-->
<source name="Lfallonii-gff" type="legiolist-gff" version="4.1.1">
......@@ -102,7 +82,7 @@
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
</source>
<!-- <source name="Lhackeliae-gff" type="legiolist-gff" version="4.1.1">
<source name="Lhackeliae-gff" type="legiolist-gff" version="4.1.1">
<property name="gff3.taxonId" value="449"/>
<property name="gff3.seqDataSourceName" value="LegioList Legionella hackeliae"/>
<property name="gff3.dataSourceName" value="LegioList"/>
......@@ -257,9 +237,9 @@
<property name="fasta.taxonId" value="272624"/>
<property name="fasta.includes" value="LpPhila.fasta"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/fasta"/>
</source> -->
</source>
<!-- <source name="uniprot" type="uniprot">
<source name="uniprot" type="uniprot">
<property name="uniprot.organisms" value="272624 297246 297245 400673 423212 1046632 661367 451 449 96230"/>
<property name="src.data.dir" location="/home/rplanel/projects/legiolist-intermine/data/legiolist/genomes/uniprot"/>
<property name="creatego" value="true"/>
......@@ -267,13 +247,13 @@
<property name="allowduplicates" value="false"/>
<property name="loadfragments" value="true"/>
<property name="loadtrembl" value="true"/>
</source> -->
</source>
<!-- <source name="legiolist-homology" type="legiolist-homology" version="4.1.1">
<source name="legiolist-homology" type="legiolist-homology" version="4.1.1">
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/"/>
<property name="src.data.dir.includes" value="table_orthos.txt"/>
<property name="legiolistTaxids" value="272624 297246 297245 400673 423212 1046632 661367 451 449 96230"/>
</source> -->
</source>
<source name="entrez-organism" type="entrez-organism">
<property name="src.data.file" location="organisms.xml"/>
......
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