fix file test file paths for RNA and remora

Psy-Fer · Nov 5, 2024 · d76e04d · d76e04d
1 parent 7266edb
commit d76e04d
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Showing 3 changed files with 6 additions and 6 deletions.
diff --git a/test/dorado/test_extensive.sh b/test/dorado/test_extensive.sh
@@ -191,7 +191,7 @@ echo "R9.4.1 RNA - FAST model"
 export PATH_TO_IDENTITY=/install/biorand/bin/identityrna.sh
 export REFIDX=/genome/gencode.v40.transcripts.fa
 export PATH_TO_FAST5=/data/slow5-testdata/uhr_prom_rna002_subsubsample/fast5/
-export PATH_TO_BLOW5=/data/data/slow5-testdata/uhr_prom_rna002_subsubsample/PRPN119035_reads_20k.blow5
+export PATH_TO_BLOW5=/data/slow5-testdata/uhr_prom_rna002_subsubsample/PRPN119035_reads_20k.blow5
 export MODEL=rna_r9.4.1_70bps_fast.cfg
 test/dorado/test.sh &> rna.log || die "test failed. See rna.log for details"
 

diff --git a/test/dorado_new/test_extensive.sh b/test/dorado_new/test_extensive.sh
@@ -191,15 +191,15 @@ echo "R9.4.1 RNA - FAST model"
 export PATH_TO_IDENTITY=/install/biorand/bin/identityrna.sh
 export REFIDX=/genome/gencode.v40.transcripts.fa
 export PATH_TO_FAST5=/data/slow5-testdata/uhr_prom_rna002_subsubsample/fast5/
-export PATH_TO_BLOW5=/data/data/slow5-testdata/uhr_prom_rna002_subsubsample/PRPN119035_reads_20k.blow5
+export PATH_TO_BLOW5=/data/slow5-testdata/uhr_prom_rna002_subsubsample/PRPN119035_reads_20k.blow5
 export MODEL=rna_r9.4.1_70bps_fast.cfg
 test/dorado_new/test.sh &> rna.log || die "test failed. See rna.log for details"
 
 echo "RNA004 RNA - rna_rp4_130bps_fast"
 export PATH_TO_IDENTITY=/install/biorand/bin/identityrna.sh
 export REFIDX=/genome/gencode.v40.transcripts.fa
 export PATH_TO_FAST5=/data/slow5-testdata/uhr_prom_rna004_subsubsample/pod5/
-export PATH_TO_BLOW5=/data/data/slow5-testdata/uhr_prom_rna004_subsubsample/PNXRXX240011_reads_20k.blow5
+export PATH_TO_BLOW5=/data/slow5-testdata/uhr_prom_rna004_subsubsample/PNXRXX240011_reads_20k.blow5
 export MODEL=rna_r9.4.1_70bps_fast.cfg
 test/dorado_new/test.sh &> rna.log || die "test failed. See rna.log for details"
 

diff --git a/test/guppy/test_extensive.sh b/test/guppy/test_extensive.sh
@@ -161,8 +161,8 @@ echo ""
 echo "********************************************************************"
 
 echo "remora"
-export PATH_TO_FAST5=/data/slow5-testdata/hg2_prom_lsk114_subsubsample/fast5/
-export PATH_TO_BLOW5=/data/slow5-testdata/hg2_prom_lsk114_subsubsample/reads.blow5
+export PATH_TO_FAST5=/data/slow5-testdata/hg2_prom_lsk114_chr22/pod5/
+export PATH_TO_BLOW5=/data/slow5-testdata/hg2_prom_lsk114_chr22/PGXX22394_reads_chr22.blow5
 export MODEL=dna_r10.4.1_e8.2_400bps_modbases_5mc_cg_fast.cfg
 test/guppy/test_remora.sh &> remora.log || die "test failed. See remora.log for details"
 echo ""
@@ -190,7 +190,7 @@ echo "R9.4.1 RNA - FAST model"
 export PATH_TO_IDENTITY=/install/biorand/bin/identityrna.sh
 export REFIDX=/genome/gencode.v40.transcripts.fa
 export PATH_TO_FAST5=/data/slow5-testdata/uhr_prom_rna002_subsubsample/fast5/
-export PATH_TO_BLOW5=/data/data/slow5-testdata/uhr_prom_rna002_subsubsample/PRPN119035_reads_20k.blow5
+export PATH_TO_BLOW5=/data/slow5-testdata/uhr_prom_rna002_subsubsample/PRPN119035_reads_20k.blow5
 export MODEL=rna_r9.4.1_70bps_fast.cfg
 test/guppy/test.sh &> rna.log || die "test failed. See rna.log for details"