Entering edit mode
6.0 years ago
jpummil
•
0
pls2fasta appears to be installed and functional, but I get no output when I run the tool against bax.h5 data...
jpummil ~-->ls -lh m16*
-rw-r--r-- 1 jpummil jpummil 6.3G May 10 10:17 m160926_204330_42238_c101113852550000001823244005011790_s1_p0.1.bax.h5
-rw-r--r-- 1 jpummil jpummil 8.6K May 10 11:17 m160926_204330_42238_c101113852550000001823244005011790_s1_p0.1.xfer.xml
-rw-r--r-- 1 jpummil jpummil 1.4G May 10 11:44 m160926_204330_42238_c101113852550000001823244005011790_s1_p0.2.bax.h5
-rw-r--r-- 1 jpummil jpummil 5.1K May 10 11:17 m160926_204330_42238_c101113852550000001823244005011790_s1_p0.2.xfer.xml
-rw-r--r-- 1 jpummil jpummil 6.2G May 10 10:22 m160926_204330_42238_c101113852550000001823244005011790_s1_p0.3.bax.h5
-rw-r--r-- 1 jpummil jpummil 5.1K May 10 11:17 m160926_204330_42238_c101113852550000001823244005011790_s1_p0.3.xfer.xml
-rw-r--r-- 1 jpummil jpummil 4.0K May 10 11:17 m160926_204330_42238_c101113852550000001823244005011790_s1_p0.metadata.xml
Run as follows:
jpummil ~-->pls2fasta *bax.h5 out.fastq -trimByRegion -fastq
No output generated...
Anything obvious I'm doing wrong???
Have you tried using one bax.h5 file at one time?
Edit: I think you may need to create a file list (file of file names,
*.fofn
) to do multiple files at one time.Hey genomax! Thanks for the tip. It returns a different error...
No idea about that one. Perhaps someone else will know.