Dave Carlson

I'm having the same problem on ARM aarch64 architecture. Were you ever able to figure out what needed to be changed to fix this? Thanks! Dave

Hi Alexey, Thanks for the update! With your changes, I just built this successfully using gcc 8.5 + OpenMPI. Interestingly, I get an internal compiler error when trying to build...

Great, thanks, Alexey. I will send you some information via email unless you have different preference. Is the email at your h-its.org page still valid? https://www.h-its.org/people/alexey-kozlov/ Thanks, Dave

Same thing happened to me on a CentOS 7.x HPC cluster. Running `conda init bash` does indeed fix the issue, but I am not going to make all the users...

Thanks for the response. Here is my config.json file: ``` { "draft_genome": { "fa": "/datahome/oenothera/assembly/bionano_results_axel/cur_results_1297259/canu_bionano_scaffolds_and_contigs.fasta" }, "raw_reads": [ { "left": "/datahome/oenothera/genomic/Illumina_PE/elata/HI.0553.002.Index_7.johst_DNA_R1.fastq", "right": "/datahome/oenothera/genomic/Illumina_PE/elata/HI.0553.002.Index_7.johst_DNA_R2.fastq" }, { "left": "/datahome/oenothera/genomic/Illumina_MP-NEW/elata_MP_nxtrim_R1.mp.fastq", "right": "/datahome/oenothera/genomic/Illumina_MP-NEW/elata_MP_nxtrim_R2.mp.fastq" }...

Thanks, Simon. I changed the kmc path in the config file to the absolute path of the folder that contains the kmc binary (the velvet path in the config was...

Hi Simon, I used the versions bundled with GAPPadder. It's a little hard to say if they're working properly. Here is the output for ContigsMerger: `Arrange error! 0 6` The...

> Need more gpu allocation Note that HHblits doesn't use any GPUs, so changing the GPU allocation would have no effect here.

I'm experiencing the same issue with a few different references I'm trying to get perbase to work with: ``` REF POS DEPTH A C G T N INS DEL REF_SKIP...

Sure thing. The reference is very small (~10 Kb) and I've extracted a subset of 10k BAM entries that produce the weird results. Thanks for taking a look! Best, Dave...