Update download_databases-classify.sh

jolespin · Aug 31, 2024 · 559e263 · 559e263
1 parent 494ee56
commit 559e263
Showing 1 changed file with 4 additions and 4 deletions.
diff --git a/install/download_databases-classify.sh b/install/download_databases-classify.sh
@@ -129,19 +129,19 @@ cp -rf ${DATABASE_DIRECTORY}/MicroEuk_v3/source_taxonomy.tsv.gz ${DATABASE_DIREC
 
 # MicroEuk100
 gzip -d ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.faa.gz
-mmseqs createdb --threads ${N_JOBS} --compressed 1 ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.faa ${DATABASE_DIRECTORY}/Classify/MicroEuk/MicroEuk100
+mmseqs createdb --compressed 1 ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.faa ${DATABASE_DIRECTORY}/Classify/MicroEuk/MicroEuk100
 
 # MicroEuk100.eukaryota_odb10
 gzip -d ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.eukaryota_odb10.list.gz
-seqkit grep -f ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.eukaryota_odb10.list ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.faa | mmseqs createdb --threads ${N_JOBS} --compressed 1 stdin ${DATABASE_DIRECTORY}/Classify/MicroEuk/MicroEuk100.eukaryota_odb10
+seqkit grep -f ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.eukaryota_odb10.list ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.faa | mmseqs createdb --compressed 1 stdin ${DATABASE_DIRECTORY}/Classify/MicroEuk/MicroEuk100.eukaryota_odb10
 
 # MicroEuk90
 gzip -d -c ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk90_clusters.tsv.gz | cut -f1 | sort -u > ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk90.list
-seqkit grep -f ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk90.list ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.faa | mmseqs createdb --threads ${N_JOBS} --compressed 1 stdin ${DATABASE_DIRECTORY}/Classify/MicroEuk/MicroEuk90
+seqkit grep -f ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk90.list ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.faa | mmseqs createdb --compressed 1 stdin ${DATABASE_DIRECTORY}/Classify/MicroEuk/MicroEuk90
 
 # MicroEuk50
 gzip -d -c ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk50_clusters.tsv.gz | cut -f1 | sort -u > ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk50.list
-seqkit grep -f ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk50.list ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.faa | mmseqs createdb --threads ${N_JOBS} --compressed 1 stdin ${DATABASE_DIRECTORY}/Classify/MicroEuk/MicroEuk50
+seqkit grep -f ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk50.list ${DATABASE_DIRECTORY}/MicroEuk_v3/MicroEuk100.faa | mmseqs createdb --compressed 1 stdin ${DATABASE_DIRECTORY}/Classify/MicroEuk/MicroEuk50
 
 # source_to_lineage.dict.pkl.gz
 build_source_to_lineage_dictionary.py -i ${DATABASE_DIRECTORY}/MicroEuk_v3/source_taxonomy.tsv.gz -o ${DATABASE_DIRECTORY}/Classify/MicroEuk/source_to_lineage.dict.pkl.gz