nhartwic
nhartwic
For those who don't have admin privileges and avoid apt-get, you should be able to use conda to manage the install of the biocode dependencies. You can use the following...
Basically the title. Here is the weird lines from the gff3 file... ``` 15593 EDTA repeat_region -2 3598 . ? . ID=repeat_region_23903;Name=TE_00012818;Classification=LTR/unknown;Sequence_ontology=SO:0000657;ltr_identity=0.9733;Method=structural;motif=TGCA;tsd=TTAAT 15593 EDTA target_site_duplication -2 2 . ? ....
I'm currently running on snakemake version 7.3.1 and tibanna version 1.9.2. I have encountered some issues and plan to upgrade to current tibanna and snakemake but have some long running...
I've been getting some Obsolete GO terms in my results. I'm curious as to how they get there and what if anything should be done about them. I'm using version...
I have two primary questions here... 1. What information does the 'x' type line contain and where is it documented? 2. What information does the SD tag, found in 'L'...
I've started playing around with this module. All in all, it works quite well. I've been using it to represent the major intersections of large (20) numbers of categories. Its...
Basically the title. My plot_metrics calls fail to produce the main figures. For reference, here is a recent "plot_metrics" result... https://salk-tm-logs.s3.amazonaws.com/1JYcXdBkgBlp.metrics/metrics.html I'm currently on snakemake 7.9.0 and tibanna 1.9.2. I...
Tibanna is great for scaling up analysis on AWS, it doesn't play nicely with CPU quotas though. #267 While error handling for this special case would be appreciated, it would...
When using tibanna as a back end for snakemake, it would be nice if log output would be uploaded regardless of if the job fails. This would make debugging a...
I have a hybrid assembly workflow that mostly works fine. However, I've noticed that when I try to continue the workflow after a succesful partial run, tibanna wants to go...