Tobias Baril

## Problem description When running classification in LTRsift, it crashes with segmentation fault and this genometools error: ``` Assertion failed: (gn && nv && gn->c_class && gn->c_class->accept), function gt_genome_node_accept, file...

IQ Segmentation Fault on anything above 1 core

1

I am trying to run IQ-Tree, but every time it stops with a segmentation fault. Currently the way to fix this is to run with a single thread. This problem...

Fasta file contains a sequence identifier which is too long - with shorter headers and run fails

4

I have received this error when running a genome in RepeatMasker: `FastaDB::_cleanIndexAndCompact(): Fasta file contains a sequence identifier which is too long ( max id length = 50 ) at...

Streamline the merge process, only attempt strict if loose fails NEEDS TESTING

Update Repeatmasker to version 4.1.6

10

Big changes have come in RepeatMasker 4.1.6. As a minimum, this version MUST be configured with dfam famdb section 0 (https://dfam.org/releases/Dfam_3.8/families/FamDB/). This recipe updates RepeatMasker to version 4.1.6, including downloading...

Update Earl Grey meta.yml

4

Describe your pull request here Add EMBOSS and pybedtools as requirements for the environment. ---- Please read the [guidelines for Bioconda recipes](https://bioconda.github.io/contributor/guidelines.html) before opening a pull request (PR). ### General...

In rcstat if rowRaw.get(col[2]): IndexError: list index out of range

5

Hi, I've been running repeatcraft successfully, but this error keeps flagging in some runs: ``` File "/repeatCraft/repeatcraft.py", line 187, in rcStatm.rcstat(rclabelp=outputnamelabel,rmergep=outputnamemerge,outfile= statfname, ltrgroup = True) File "/repeatCraft/helper/rcStatm.py", line 54, in...

Azure Pipelines Lint Issue

1

I've come across an issue this morning which I think is responsible for all the failed tests across multiple packages in pull requests: ``` No hosted parallelism has been purchased...

Update build to specify version 4.1.5 of RepeatMasker, rather than >4.1.4. Prevent the use of RepeatMasker 4.1.6 ---- Please read the [guidelines for Bioconda recipes](https://bioconda.github.io/contributor/guidelines.html) before opening a pull request...