miRanalyzer installation

[rkizen]

Has anyone successfuly installed the stand alone version of miRanalyzer?

I am having trouble using the makeSeqObj.jar package. Usage according to the package, the usage is:

java -jar MakeSeqObj.jar input-fasta-file

However when I try that I get:

java -jar makeSeqObj.jar genome.fa
Converting: genome.fa
java.io.FileNotFoundException: null/genome.zip (No such file or directory)
at java.io.FileOutputStream.open(Native Method)
at java.io.FileOutputStream.<init>(FileOutputStream.java:209)
at java.io.FileOutputStream.<init>(FileOutputStream.java:99)
at sequences.FastaByteUtil.readWriteFastaByteUCMFasta(FastaByteUtil.java:41)
at miRanalyzerV2.MakeSeqOBJ.main(MakeSeqOBJ.java:48)

Any ideas as to what is going on?

[rkizen]

Ok it required the full path of the input file. I guess makeSeqObj.ja gets the path directly from the argument instead of making it from the current working directory. Seems strange.

[hmortens]

it was a pain to install. but I got it working. now i wonder if the miRbase versions that the DB is built with are really old?

[monifabbro23]

Confirmed! you have to put the full path of your fasta file.