flowcraft

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Hi, Are you guys things of adding the tool to galaxy toolshed so its easy for everyone to use it?

ajkarloss

Integrity coverage fails

15

#52 and #56 may be related to this issue. I'm building the simplest pipeline on AWS (Linux): spades + docker. The FastQ files are real bacterial datasets, 5Mb, 100X coverage....

TheSequencingCenter

Errors with spades

18

Apologies in advance if this is obvious..I am new! I am using flowcraft via WSL2 (Ubuntu 20.04; singularity 2.5.2; i7 10th gen laptop with 16Gb RAM). Following the issues already...

drpturner

Added hisat2 component

1

This change is [](https://reviewable.io/reviews/assemblerflow/flowcraft/213)

PhilPalmer

add copyright information

1

This PR adds copyright information of the FlowCraft project. --- This change is [](https://reviewable.io/reviews/assemblerflow/flowcraft/216)

cimendes

https://github.com/OLC-Bioinformatics/ConFindr

cimendes

Update processes directives to use selectors.

3

As of version 0.31.0, nextflow throws a warning when using the `process.$. = ` notation: ``` WARN: Process configuration syntax $processName has been deprecated -- Replace `process.$trimmomatic_1_3 = ` with...

ODiogoSilva

New additions in flowcraft/templates not updated after build and inst…

1

Added a line to consider flowcraft/templates as a package to update in setup.py, w.r.t issue #229 . --- This change is [](https://reviewable.io/reviews/assemblerflow/flowcraft/230)

parvsachdeva

Hello! I noticed that when I added some scripts to the `flowcraft/templates` directory, they were not included in my pipeline template folder. I have to add scripts by going in...

parvsachdeva

As of Nextflow's version [19.08.1-edge](https://github.com/nextflow-io/nextflow/releases/tag/v19.08.1-edge), the set input type has been deprecated. Use tuple instead. More info here: https://www.nextflow.io/docs/latest/process.html#input-of-type-set & https://www.nextflow.io/docs/latest/process.html#input-of-type-tuple

cimendes