Bedhost-ui: Bedset constructor cart

[nsheff]

We had previously discussed the possibility of dynamic bedsets, which we've put on hold for now, because to get the full features of bedsets we'd need to run a pipeline on it.

But when we get to the point of allowing dynamic, user-specified bedsets, which I think will be valuable in the future, then here's one idea for how to enable that:

Sean suggested to allow users to construct their own bedsets using a 'cart' functionality. you could do repeated searches and incrementally add to your 'cart', and once you had selected the bedfiles of interest, you could 'construct bedset'.

[xuebingjie1990]

• react create bedset with list of bedfiles, insert to the database without stats
• react submit job to create the bedset: bedsets stats calculation should be done on separate "computing" server
• add a processed column in the bedsets table, when the job is submitted by react, processed = False

short term:

• download user defined BED set:
  • download zip file
  • maybe provide file list and command to download them from s3)

[xuebingjie1990]

• maybe provide file list and command to download them from s3

S3: https://stackoverflow.com/questions/38021661/copy-multiple-files-from-s3-bucket/69018735#69018735
cat <filename>.txt | parallel aws s3 cp {} <output_dir>
filelist:

s3://bucket-name/file1.wav
s3://bucket-name/file2.wav
s3://bucket-name/file3.wav

wget: https://stackoverflow.com/questions/40986340/how-to-wget-a-list-of-urls-in-a-text-file

[xuebingjie1990]

• react create bedset with list of bedfiles, insert to the database without stats

Need to check for existing BED set

[nsheff]

Status of this issue?

[xuebingjie1990]

Status of this issue?

With the upgrade of the new bedhost, we don't have any of the function mentioned above. It should be easy to bring those back, which is just an endpoint to create a file with paths of the bedfiles in the "user defined" bedset.

However, our ultimate goal was to process user defined bedset and add the bedset to our database. @khoroshevskyi do we have any plan for this? let me know if you need anything from me.