Fernando A. Rabanal

Hi @oushujun , I'm following up on [a topic I started in EDTA, but has to do with estimating LAI within species](https://github.com/oushujun/EDTA/issues/134), sometimes between different assemblies of the same genotype:...

Hi @oushujun, Thanks for pushing the `-genome_size` parameter. I can confirm it works well with the latest LTR_retriever. Just for the purpose of completeness in this thread, I post here...

Having the same issue here, and I follow essentially the same steps with .csi and .idx indexing for bam and .g.vcf files, respectively. @tfenne or anyone else, have you figured...

Hi @oushujun , I'm an avid user of EDTA. I've recently installed version 2.1.3 with conda, and I've gotten the two issues reported by @sumoii **1.** `Warning: LOC list genome.fa.mod.ltrTE.veryfalse...

Thank for the prompt response. EDTA.final/RM_* folder does not exist. here the content of the directory `ls -lt ANGE-B-10.fa.mod.EDTA.final/` ``` -rw-r--r-- 1 frabanal ebio 613900 Jun 28 18:35 ANGE-B-10.fa.mod.EDTA.intact.gff3 -rw-r--r--...

Indeed, that might be the problem: EDTA not detecting that I gave it the "--sensitive 1" parameter. Below the command I used, same issue for another Arabidopsis genome, and an...

Hi again, Just tested it: ``` BuildDatabase -name ANGE-B-10 ANGE-B-10.fa RepeatModeler -database ANGE-B-10 -threads 96 -LTRStruct >& run.out & ``` It worked well (RM_* was created, there are up to...

Hi @oushujun, Just to update on my issue, which is not anymore. I re-install EDTA, this time with `conda env create -f EDTA.yml` (version 2.1.3), and everything worked out well:...

I have exactly the same error message when installing with conda. I've uninstalled both pysam and pysamstats, installed the correct versions (pysam==0.11.2.2 & pysamstats==1.0.1; btw, Python 2.7.14 :: Anaconda, Inc.),...