dib-lab elvers issues - Githubissues

dib-lab / elvers

(formerly eelpond) an automated RNA-Seq workflow system

https://dib-lab.github.io/elvers/

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issues

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CreateCondaEnvironmentException: Could not create conda environment from /VirSorter2/virsorter/rules/../envs/vs2.yaml

#163 lifeifeifeifei closed 2 years ago
0
Hanging on setting up Trinity environment

#162 matthewabirk opened 3 years ago
0
switch to thumper/charcoal-style click interface

#161 bluegenes opened 3 years ago
0
stuck downloading packages when testing

#160 AntonioBaeza opened 3 years ago
5
Update __main__.py

#159 maligang closed 3 years ago
0
Salmon Version Errors

#158 zdellaert opened 4 years ago
0
lastdb version 992 (dammit)

#157 zdellaert opened 4 years ago
0
NameError: name 'pygments' is not defined

#156 olar785 opened 4 years ago
0
Can't add rules for extra target multiqc

#155 olar785 closed 4 years ago
1
Bump eslint from 4.18.1 to 4.18.2 in /mkdocs-material-dib

#154 dependabot[bot] opened 4 years ago
1
finish bowtie2 rule

#153 bluegenes opened 4 years ago
0
How to run DESeq2 with 3 treatments?

#152 matthewabirk opened 5 years ago
3
Pandas was not already installed

#151 prvasquez opened 5 years ago
0
another snakemake based toolkit

#150 ctb opened 5 years ago
1
Error running dammit annotation

#149 prvasquez closed 5 years ago
1
per-sample reference and sra-ftp utilities

#148 bluegenes opened 5 years ago
0
--rerun-incomplete flag not working

#147 matthewabirk opened 5 years ago
1
deseq2 not running as standalone

#146 matthewabirk closed 5 years ago
0
suggestion, recorded tutorial

#145 johnsolk opened 5 years ago
0
collapse get_data and get_reference into one rule

#144 taylorreiter opened 5 years ago
2
enable list of sample names to use for trinity assembly

#143 bluegenes closed 5 years ago
0
add cluster_cmd param

#142 bluegenes closed 5 years ago
0
Default trimmomatic setting for Phred score cutoff?

#141 matthewabirk closed 5 years ago
1
fix deseq2 conda env

#140 bluegenes closed 5 years ago
4
Default trimmomatic adapter files with broken path

#139 matthewabirk closed 5 years ago
1
modular versioning

#138 bluegenes opened 5 years ago
0
better khmer

#137 bluegenes opened 5 years ago
0
Pin version numbers in rule environment.yml files

#136 charlesreid1 closed 5 years ago
3
Pinning version numbers in rule environment.yml files

#135 charlesreid1 closed 5 years ago
6
fix print params

#134 bluegenes closed 5 years ago
0
deseq parameter error

#133 prvasquez closed 5 years ago
1
[WIP] Check inputs

#132 bluegenes opened 5 years ago
0
use dammit annotations for DE (collapse "genes" based on annots)

#131 bluegenes opened 5 years ago
5
[WIP] add tests for all rules

#130 bluegenes closed 5 years ago
0
[WIP] specify workflows from config; add workflow checks

#129 bluegenes closed 5 years ago
0
[WIP] specify workflows from config; add workflow checks

#128 bluegenes closed 5 years ago
1
[WIP] add conda recipe and JOSS paper draft

#127 bluegenes closed 5 years ago
0
[WIP] add error checking for some commonly observed problems, plus test cases

#126 ctb opened 5 years ago
3
typo in rules/dammit/dammit-wrapper.py

#125 johnny3420 closed 5 years ago
1
simplify config merge and check?

#124 bluegenes opened 5 years ago
0
can we trap snakemake Python tracebacks and output them to a file?

#123 ctb opened 5 years ago
1
[MRG] add config validation, better input file finding

#122 bluegenes closed 5 years ago
0
add conda recipe

#121 bluegenes opened 5 years ago
0
only read in samples IF we need them

#120 bluegenes closed 5 years ago
1
update conda envs

#119 bluegenes opened 5 years ago
2
init get_reference rule

#118 bluegenes closed 5 years ago
1
[WIP] enable cluster job submission

#117 bluegenes closed 5 years ago
1
[MRG] introducing elvers! [but first, merge #99, 118, 120]

#116 bluegenes closed 5 years ago
5
split tximport from deseq2

#115 bluegenes opened 5 years ago
0
reference ARMOR

#114 ctb opened 5 years ago
1