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Commit fa969ee8 authored by Remi PLANEL's avatar Remi PLANEL
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Add other protein strains

parent 8ae8f0d3
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Showing with 171 additions and 2 deletions
project.xml
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......@@ -99,6 +99,29 @@
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/fasta"/>
</source>
<source name="Lhackeliae-protein-gene" type="legiolist-gene-prot" version="4.1.1">
<property name="legiolist.taxid" value="449"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
<property name="src.data.dir.includes" value="Lhackeliae-prot-gene.tsv"/>
</source>
<source name="Lhackeliae-protein-fasta" type="fasta" version="4.1.1">
<property name="fasta.taxonId" value="449"/>
<property name="fasta.dataSetTitle" value="Legiolist protein sequence"/>
<property name="fasta.className" value="org.intermine.model.bio.Protein"/>
<property name="fasta.classAttribute" value="primaryIdentifier"/>
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.suffix" value="protein" />
<property name="fasta.includes" value="Lhackeliae.faa"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
</source>
<source name="Lmicadei-gff" type="legiolist-gff" version="4.1.1">
......@@ -119,6 +142,27 @@
</source>
<source name="Lmicadei-protein-gene" type="legiolist-gene-prot" version="4.1.1">
<property name="legiolist.taxid" value="451"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
<property name="src.data.dir.includes" value="Lmicadei-prot-gene.tsv"/>
</source>
<source name="Lmicadei-protein-fasta" type="fasta" version="4.1.1">
<property name="fasta.taxonId" value="451"/>
<property name="fasta.dataSetTitle" value="Legiolist protein sequence"/>
<property name="fasta.className" value="org.intermine.model.bio.Protein"/>
<property name="fasta.classAttribute" value="primaryIdentifier"/>
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.suffix" value="protein" />
<property name="fasta.includes" value="Lmicadei.faa"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
</source>
<source name="Long_Mage-gff" type="legiolist-gff" version="4.1.1">
<property name="gff3.taxonId" value="661367"/>
......@@ -137,6 +181,24 @@
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/fasta"/>
</source>
<source name="Long_Mage-protein-gene" type="legiolist-gene-prot" version="4.1.1">
<property name="legiolist.taxid" value="661367"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
<property name="src.data.dir.includes" value="Long_Mage-prot-gene.tsv"/>
</source>
<source name="Long_Mage-protein-fasta" type="fasta" version="4.1.1">
<property name="fasta.taxonId" value="661367"/>
<property name="fasta.dataSetTitle" value="Legiolist protein sequence"/>
<property name="fasta.className" value="org.intermine.model.bio.Protein"/>
<property name="fasta.classAttribute" value="primaryIdentifier"/>
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.suffix" value="protein" />
<property name="fasta.includes" value="Long_Mage.faa"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
</source>
......@@ -158,6 +220,29 @@
</source>
<source name="Lorraine-protein-gene" type="legiolist-gene-prot" version="4.1.1">
<property name="legiolist.taxid" value="1046632"/>
<property name="legiolist-gene-prot.dataSetTitle" value="LegioList Lorraine proteins"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
<property name="src.data.dir.includes" value="Lorraine-prot-gene.tsv"/>
</source>
<source name="Lorraine-protein-fasta" type="fasta" version="4.1.1">
<property name="fasta.taxonId" value="1046632"/>
<property name="fasta.dataSetTitle" value="Legiolist Lorraine protein sequence"/>
<property name="fasta.className" value="org.intermine.model.bio.Protein"/>
<property name="fasta.classAttribute" value="primaryIdentifier"/>
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.suffix" value="protein" />
<property name="fasta.includes" value="Lorraine.faa"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
</source>
......@@ -179,6 +264,29 @@
</source>
<source name="LpAlcoy-protein-gene" type="legiolist-gene-prot" version="4.1.1">
<property name="legiolist.taxid" value="423212"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
<property name="src.data.dir.includes" value="LpAlcoy-prot-gene.tsv"/>
</source>
<source name="LpAlcoy-protein-fasta" type="fasta" version="4.1.1">
<property name="fasta.taxonId" value="423212"/>
<property name="fasta.dataSetTitle" value="Legiolist protein sequence"/>
<property name="fasta.className" value="org.intermine.model.bio.Protein"/>
<property name="fasta.classAttribute" value="primaryIdentifier"/>
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.suffix" value="protein" />
<property name="fasta.includes" value="LpAlcoy.faa"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
</source>
<source name="LpCorby-gff" type="legiolist-gff" version="4.1.1">
......@@ -199,6 +307,27 @@
</source>
<source name="LpCorby-protein-gene" type="legiolist-gene-prot" version="4.1.1">
<property name="legiolist.taxid" value="400673"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
<property name="src.data.dir.includes" value="LpCorby-prot-gene.tsv"/>
</source>
<source name="LpCorby-protein-fasta" type="fasta" version="4.1.1">
<property name="fasta.taxonId" value="400673"/>
<property name="fasta.dataSetTitle" value="Legiolist protein sequence"/>
<property name="fasta.className" value="org.intermine.model.bio.Protein"/>
<property name="fasta.classAttribute" value="primaryIdentifier"/>
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.suffix" value="protein" />
<property name="fasta.includes" value="LpCorby.faa"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
</source>
......@@ -220,6 +349,25 @@
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/fasta"/>
</source>
<source name="LpLens-protein-gene" type="legiolist-gene-prot" version="4.1.1">
<property name="legiolist.taxid" value="297245"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
<property name="src.data.dir.includes" value="LpLens-prot-gene.tsv"/>
</source>
<source name="LpLens-protein-fasta" type="fasta" version="4.1.1">
<property name="fasta.taxonId" value="297245"/>
<property name="fasta.dataSetTitle" value="Legiolist protein sequence"/>
<property name="fasta.className" value="org.intermine.model.bio.Protein"/>
<property name="fasta.classAttribute" value="primaryIdentifier"/>
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.suffix" value="protein" />
<property name="fasta.includes" value="LpLens.faa"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
</source>
<source name="LpPhila-gff" type="legiolist-gff" version="4.1.1">
......@@ -239,7 +387,28 @@
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/fasta"/>
</source>
<source name="uniprot" type="uniprot">
<source name="LpPhila-protein-gene" type="legiolist-gene-prot" version="4.1.1">
<property name="legiolist.taxid" value="272624"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
<property name="src.data.dir.includes" value="LpPhila-prot-gene.tsv"/>
</source>
<source name="LpPhila-protein-fasta" type="fasta" version="4.1.1">
<property name="fasta.taxonId" value="272624"/>
<property name="fasta.dataSetTitle" value="Legiolist protein sequence"/>
<property name="fasta.className" value="org.intermine.model.bio.Protein"/>
<property name="fasta.classAttribute" value="primaryIdentifier"/>
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.sequenceType" value="protein" />
<property name="fasta.suffix" value="protein" />
<property name="fasta.includes" value="LpPhila.faa"/>
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/genome/protein"/>
</source>
<!-- <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"/>
......@@ -247,7 +416,7 @@
<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">
<property name="src.data.dir" location="/home/intermine/intermine/data/pre-process-data/"/>
......
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