vgteam
VG chunk exited with code 0
Hello,
I am trying to load sequenceTubeMap on slurm. When I run the yarn serve command and load localhost:3000 on my browser I get the following error.
nodeID = 1 distance = 100 no gbwt file provided. dataPath = ./exampleData/ Sun Nov 29 2020 15:23:29 GMT+1100 (Australian Eastern Daylight Time) Connection from origin http://localhost:3000. vg chunk exited with code 0 vg view exited with code 0 vg chunk: 36.687ms annotationFile: ./tmp-a1d862f0-31fa-11eb-af07-0b50775518fe/chunk_0_17_0_603.annotate.txt processing annotation file: 2.29ms processing gam file: 47.153ms processing region file: 1.229ms request-duration: 98.041ms
Can you help me out with this? I want to run sequenceTubeMap on my one data. But, it is not even loading the home page with the example data. As I change the example data directory in the config.json file and select my data in the browser, I get the same error. I have downloaded the binary vg file and tried the older versions as well.
Thanks Ayush
Hello @AyushSemwal; sorry for taking so long to get back to you on this.
The real error here looks to be no gbwt file provided., and that's really an informative message. Exiting with code 0 indicates that the process in question succeeded; the log you give doesn't indicate a particular problem to me.
Are you not observing the behavior you expect in the browser? If so, what did you want to happen there, and what do you actually see? Is it just producing a blank tube map?
I am going to work on fixing the example data behavior with the current vg in #104. As for viewing your data, do you have paths in the graph? If you don't have a GBWT, the tube map will only display nodes along paths. If you don't have a GBWT and you don't have any paths, it won't display anything.
