-
If brew is interrupted while updating git, it leaves git unlinked - and in my environment unlinkable. Can anything be done to make this more robust? Maybe wait to unlink the old version until the new …
-
Hi,
I am trying to validate if bcbio is set right in our HPC. For this, we need a small data that can be optimised easily. That is why I would like to reproduce chr 6 data. When I run the process, th…
-
Hi Neil,
I have some large beagle-phased VCF files I would like to run through HapBin. Do you have VCF support?
zeeev updated
8 years ago
-
Would it be possible to install the two packages below? My understanding is that the first depends on the second, and also on PCAP-core (https://github.com/ICGC-TCGA-PanCancer/PCAP-core), which was in…
-
I've had this issue before I believe specifically with lame. Some of the library files and others require root permissions. I cannot upgrade nor remove lame using brew.
Here is the recent attempt:
…
-
Hi,
I tried the install bcbio with the command below.
```
python bcbio_nextgen_install.py /usr/local/share/bcbio --tooldir=/usr/local --genomes GRCh37
```
My bcbio installation stuck at the step …
-
Hello,
I am trying to create a new docker image, but I have encountered the following issue.
Can you provide me some guidance in order to fix this problem?
``` python
failed: [127.0.0.1] => {
"a…
-
I'm trying to use freebayes in order to determine counts of reference and alternate alleles from a number of pooled DNA samples sequenced with Illumina HiSeq PE sequencing. I'm using v0.9.21-23-gfc960…
-
Hello,
I am trying to install Bc-Bio on a linux cluster, but keep running into this issue:
```
The following packages will be UPDATED:
singledispatch: 3.4.0.3-py27_0 --> 3.4.0.3-…
-
We are trying to combine several cohorts, each contains ~1000 samples. While we could easily create chunks, without any errors, the agg genotypes step run forever for some of the chromosomes. Differen…