Bump version number for v1.4.1 release

[ewels]

Bumped version number ready for the v1.4.1 minor release

[phue]

I think we might have another python problem here :

 ERROR ~ Error executing process > 'trim_galore (LowerStem_D2_single)'


Caused by:

  Process `trim_galore (LowerStem_D2_single)` terminated with an error exit status (1)


Command executed:

  trim_galore --cores 4 --fastqc --gzip  --clip_r1 8 --three_prime_clip_r1 8 LowerStem_D2_single.fastq

Command exit status:
  1

Command output:
  (empty)


Command error:
  Letting the (modified) Cutadapt deal with the Python version instead

  Parallel gzip (pigz) detected. Proceeding with multicore (de)compression using 4 cores
     >>> Now performing quality (cutoff '-q 20') and adapter trimming in a single pass for the adapter sequence: 'AGATCGGAAGAGC' from file LowerStem_D2_single.fastq <<< 

  ERROR: Running in parallel is not supported on Python 2

  Cutadapt terminated with exit signal: '256'.

  Terminating Trim Galore run, please check error message(s) to get an idea what went wrong...

[ewels]

Argh! So cutadapt needs python 3 and HISAT2 needs python 2?

[phue]

Argh! So cutadapt needs python 3 and HISAT2 needs python 2?

seems like 😞

[apeltzer]

But that shouldn't be the case - its one of the tools running 2to3 so it should be running on python3 - see the bioconda build script for the recipe here!

[ewels]

Yes, but then the python 3 builds are skipped anyway. I already made an issue asking why: bioconda/bioconda-recipes#18911

I might try to prep a PR to enable py3k builds again and see what happens.

[apeltzer]

bioconda/bioconda-recipes#19100 once that is in, this should work again. Just need to use the latest hisat2 recipe then, which should be python3 compatible --> done 👍

[ewels]

HiSAT2 should now be py3k compatible on bioconda! 🎉

Added Python 3 back as a requirement here. This PR should be merged then we'll need another PR to test again.

[phue]

Great stuff! MultiQC 1.8 should also work then?

[apeltzer]

Yes !