psites_number table is not generated with v1.2.15

[hsinyenwu]

I think I still encounter an issue that is similar to issue#32 i.e., I did not get the psites_number table in the hdf5 file.

  group           name       otype dclass   dim
0     /        p_sites H5I_DATASET   VLEN 46826
1     / transcript_ids H5I_DATASET STRING 46826

Also the dimension of the p_sites table seems to be wrong. Otherwise the code ran okay and generated other files.

This job is running on skl-119 on Wed May 17 23:21:46 EDT 2023
0% has finished! ^M2% has finished! ^M4% has finished! ^M6% has finished! ^M9% has finished! ^M11% has finished! ^M13% has finished! ^M15% has finished! ^M17% has finished! ^M19% has finished! ^M21% has finished! ^M23% has finished! ^M26% has finished! ^M28% has finished! ^M30% has finished! ^M32% has finished! ^M34% has finished! ^M36% has finished! ^M38% has finished! ^M41% has finished! ^M43% has finished! ^M45% has finished! ^M47% has finished! ^M49% has finished! ^M51% has finished! ^M53% has finished! ^M56% has finished! ^M58% has finished! ^M60% has finished! ^M62% has finished! ^M64% has finished! ^M66% has finished! ^M68% has finished! ^M70% has finished! ^M73% has finished! ^M75% has finished! ^M77% has finished! ^M79% has finished! ^M81% has finished! ^M83% has finished! ^M85% has finished! ^M88% has finished! ^M90% has finished! ^M92% has finished! ^M94% has finished! ^M96% has finished! ^M98% has finished! ^M[2023-05-17 23:29:14] Finished!
        Loading transcripts.pickle ...
        Reading bam file: /mnt/home/larrywu/CTRL_arabidopsis/data/RiboCode_STAR/ribo_mapped/D1//star_D1_Aligned.toTranscriptome.out.bam......
Finished reading bam file!

Any suggestions for how to deal with this issue? Thanks!