Hello,
I am testing the example data, but it couldn't read the fasta correctly with the following warnings.
java -jar ../../jprime-0.3.7.jar DLRS dlrs_example_1.stree dlrs_example_1.fa dlrs_example_1.map
16:13:03.375 [main] WARN o.b.n.core.sequence.io.FastaReader - Sequence with header 'Canis_lupus_1' has unrecognised compounds (Cannot find compound for: L), it will be ign
ored
16:13:03.377 [main] WARN o.b.n.core.sequence.io.FastaReader - Sequence with header 'Cavia_porcellus_1' has unrecognised compounds (Cannot find compound for: V), it will be
ignored
16:13:03.377 [main] WARN o.b.n.core.sequence.io.FastaReader - Sequence with header 'Cavia_porcellus_2' has unrecognised compounds (Cannot find compound for: L), it will be
ignored
...
ERROR: Cannot create sequence data without any sequences.
The error could be more clear here. The example contains protein sequences and the default model (and then: assumed sequence type) is DNA. If you add the option "-sm JTT" (for example), then it should work.
Hello, I am testing the example data, but it couldn't read the fasta correctly with the following warnings.