najoshi

boost not found error in windows 10

1

I am trying to install velocyto.R on a windows 10 machine and I keep getting this error no matter what I've tried. I've installed the boost libraries in windows, I've...

metaspades with single-end reads?

1

Any timeline on when using metaspades with just one single-end file will be available?

2.4.0 release doesn't generate easy_path file

6

Installing on ubuntu from source, doesn't generate the easy_path file. Then errors out when trying to find the synapseclient package.

Hello, Is there any plan to add a running time display? I.e. text overlayed onto the video that displays a running count of the number of seconds passed and the...

cannot find coverage.stats in data repo

1

So I've downloaded the GRCh38 repo and I am using the docker image. When I run my command I get the error below: root@chimera:/home/joshi/sandbox# $AA --bed /home/joshi/sandbox/seed.bed --bam /home/joshi/sandbox/ANZC8_17.ALL.bam --out...

Is there any way to convert the kaiju output to the biom format? Short of writing my own code to do it?

creating custom db causes classification issues

3

So I have created a custom database by taking the refseq proteins and adding proteins from a database called RUG2. When I run classification with the regular refseq database on...

creating srst2 executable

2

I've tried both the pip install and python setup.py ways of installing srst2, and I can't seem to get the "srst2" executable to generate. I get the "slurm_srst2.py" and "getmlst.py"...

So I am trying to use the "train" subcommand of classifier.jar to create a new DB out of custom data. The problem is that the taxonomy data that I have...

Version incorrect and CMAKE_PREFIX_PATH not working

5

I use the CMAKE_PREFIX_PATH option in cmake to install htstream into a non-default directory, but when I run "make install" it still tries to install the binaries in /usr/local/bin. Also,...