Dear all,
I have some problems when convert data from PLINK (PED,MAP) to BEAGLE Genotypes file format.
There is a pipeline provided by GERMLINE software (http://www1.cs.columbia.edu/~gusev/germline/), which helps to convert. However I got some errors which I am not sure how did it happen and how to solve it.
I have followed the README for each step. The only thing I have change from transformation script is the input path. Before I changed the path, errors were more.
Here is error:
Exception in thread "main" java.lang.IllegalArgumentException: missing out argument
at c.d.a(Unknown Source)
at c.d.a(Unknown Source)
at phaser.Z.<init>(Unknown Source)
at phaser.PhaseMain.<init>(Unknown Source)
at phaser.PhaseMain.main(Unknown Source)
ERROR: out.pre_phase.bgl.phased does not exist or is empty
I have some problems when convert data from PLINK (PED,MAP) to BEAGLE Genotypes file format.
There is a pipeline provided by GERMLINE software (http://www1.cs.columbia.edu/~gusev/germline/), which helps to convert. However I got some errors which I am not sure how did it happen and how to solve it.
I have followed the README for each step. The only thing I have change from transformation script is the input path. Before I changed the path, errors were more.
Here is error:
Exception in thread "main" java.lang.IllegalArgumentException: missing out argument
at c.d.a(Unknown Source)
at c.d.a(Unknown Source)
at phaser.Z.<init>(Unknown Source)
at phaser.PhaseMain.<init>(Unknown Source)
at phaser.PhaseMain.main(Unknown Source)
ERROR: out.pre_phase.bgl.phased does not exist or is empty
Comment