Matthew J. Oldach comments

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                                            Matthew J. Oldach

ERROR:root:Unable to load cythonized quickconsensus module; this is likely because pysam has been updated since genomeview was originally install. To fix this, force reinstall genomeview: pip install --upgrade --force-reinstall genomeview

Hi @nspies thank you for getting back to us. I can confirm that after following your suggestions I have got `svviz2` up and running. Thank you very much again, and...

ERROR:root:Unable to load cythonized quickconsensus module; this is likely because pysam has been updated since genomeview was originally install. To fix this, force reinstall genomeview: pip install --upgrade --force-reinstall genomeview

Hey @slzarate did you ever get your container working? I'm trying it out but getting an error: ``` sudo docker run -v /home/mtg/svviz2:/mnt/mydata -it moldach686/svviz2 svviz ref /mnt/mydata/c_elegans.PRJNA13758.WS265.genomic.fa -b /mnt/mydata/VC109_Homo_trim_bwaMEM_sort.bam...

ERROR:root:Unable to load cythonized quickconsensus module; this is likely because pysam has been updated since genomeview was originally install. To fix this, force reinstall genomeview: pip install --upgrade --force-reinstall genomeview

Using an older version of `svviz` I get the opposite error - for the `bam` file. ``` (base) mtg@mtg-ThinkPad-P53:~/svviz2$ sudo docker run -v /home/mtg/svviz2/tmp:/mnt/mydata -it eppierj/svviz2 --ref /mnt/data/c_elegans.PRJNA13758.WS265.genomic.fa --variants /mnt/mydata/VARIANTS...

Add missing themes :art: :busts_in_silhouette:

Would it be possible to create a _single_ function (using a self-contained language model) that dynamically generates both `ggplot2` theme and scale (either fill or color) from a user-provided photo...

Where is output from training?

From the above example, you provided it's not clear how I'm transferring _my_ **style** to a **content** image. I can see the `--content` param where I can provide either a...

How to get leaf indices that each sample was assigned to in the forest

Can you please add this as a feature request?

testRun failure

You had mentioned that 1) RUFUS _might_ be able to be built with a version `gcc` > 4.9.2 (but that this wasn't extensively tested), and 2) to build on a...

testRun failure

# UPDATE: After building with `gcc-4.9.2` on another server and transferring it I'm getting the following error: ``` checking for samtools /project/M-mtgraovac182840/tools/samtools-1.3.1/bin/samtools samtools found _arg_fastqA = _arg_fastqB = @@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@@ Final...

testRun failure

Hi again @jandrewrfarrell . The `Docker` solution has hit a brick wall so I'm returning to try this again. Figured it would be best to start fresh by pulling in...

testRun failure

> ok, i’m glad you have it working on the original machine, so we know RUFUS works for you This is not true. Our clinical data is on an offline/air-gapped...