Merged
Conversation
|
The latest updates on your projects. Learn more about Vercel for Git ↗︎
|
acashmoney
approved these changes
Jul 13, 2023
Contributor
acashmoney
left a comment
There was a problem hiding this comment.
Thanks @flowscience, approved! I made a small change to move the testdata you provided into a dedicated folder. It's now at plex/testdata/sequencing/fastqc/testdata.fastq.
Run
./plex create -t tools/fastqc/fastqc.json -i testdata/sequencing/fastqc --autoRun=true
Plex version (v0.8.3) up to date.
Temporary directory created: /var/folders/v3/nwpptsrj2wx7rddqg0wd33rr0000gn/T/b52e711f-e966-48a7-97b4-e3a9b470fb944268966443
Reading tool config: tools/fastqc/fastqc.json
Creating IO entries from input directory: testdata/sequencing/fastqc
Initialized IO file at: /var/folders/v3/nwpptsrj2wx7rddqg0wd33rr0000gn/T/b52e711f-e966-48a7-97b4-e3a9b470fb944268966443/io.json
Initial IO JSON file CID: QmeLbEWFvY9xCF2CmWqntE5STpiW4DwEoCpLWXFd9k9tQF
Created working directory: /Users/aakaash/Desktop/code/OPENLAB/temp/plex/jobs/dddb0066-f86f-46db-8884-0248ce514156
Initialized IO file at: /Users/aakaash/Desktop/code/OPENLAB/temp/plex/jobs/dddb0066-f86f-46db-8884-0248ce514156/io.json
Processing IO Entries
Starting to process IO entry 0
Job running...
Bacalhau job id: 0a939133-87fe-4348-841d-c48cd54c3f74
////_🌱___////
Computing default go-libp2p Resource Manager limits based on:
- 'Swarm.ResourceMgr.MaxMemory': "8.6 GB"
- 'Swarm.ResourceMgr.MaxFileDescriptors': 30720
Applying any user-supplied overrides on top.
Run 'ipfs swarm limit all' to see the resulting limits.
Success processing IO entry 0
Finished processing, results written to /Users/aakaash/Desktop/code/OPENLAB/temp/plex/jobs/dddb0066-f86f-46db-8884-0248ce514156/io.json
Completed IO JSON CID: QmXQ4fh9aZL6bUXZMDXLW4U7Wyv6A6rgFLN99XVBSsTGB2
Results
[
{
"outputs": {
"outdata": {
"class": "File",
"filepath": "testdata_fastqc.zip",
"ipfs": "QmV81EZWRuu3HhK8aZxsvj7XpZEeHVjABKwZJ52XRxsnki"
},
"report": {
"class": "File",
"filepath": "testdata_fastqc.html",
"ipfs": "QmbdDa4SpMbmCFwsshRws1Ek2DPe9QPiGXFu32MQLuwhYY"
}
},
"tool": {
"name": "fastqc",
"ipfs": "QmdJhaeDUAiR5VdSyREwv2Hz7fnidMYRQQZ5Cus4cV3pjz"
},
"inputs": {
"reads": {
"class": "File",
"filepath": "testdata.fastq",
"ipfs": "QmUvALPCVL5ZgnRWyvfqjrTSK9UgLW1JJTLsisFooRpcGD"
}
},
"state": "completed",
"errMsg": ""
}
]
Closed
This file contains hidden or bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
Sign up for free
to join this conversation on GitHub.
Already have an account?
Sign in to comment
Add this suggestion to a batch that can be applied as a single commit.This suggestion is invalid because no changes were made to the code.Suggestions cannot be applied while the pull request is closed.Suggestions cannot be applied while viewing a subset of changes.Only one suggestion per line can be applied in a batch.Add this suggestion to a batch that can be applied as a single commit.Applying suggestions on deleted lines is not supported.You must change the existing code in this line in order to create a valid suggestion.Outdated suggestions cannot be applied.This suggestion has been applied or marked resolved.Suggestions cannot be applied from pending reviews.Suggestions cannot be applied on multi-line comments.Suggestions cannot be applied while the pull request is queued to merge.Suggestion cannot be applied right now. Please check back later.
No description provided.