galaxyproject / galaxyproject/tpv-shared-database

Update minimum RAM for Flye

Open
#55 2 comments 0 reactions 0 assignees View on GitHub
Dominant language
No language data
Stars
12
Forks
20
PR merge metrics
No merged PRs in 30d

Description

Hi!
To run, **Flye** needs to first get all the reads in the memory, therefore, the minimum RAM requirement equals the (uncompressed) reads file size. Would it be possible to modify the RAM to something like 1.2 times the reads file size?
Now it is:
```
toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/.*:
cores: 20
mem: 60
```
:)

Contributor guide

No contributing guide indexed for this repository

Research direction

Start by locating the Flye rule matching toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/.* and checking how its cores and mem values are defined. Determine whether the shared rules can derive memory from the uncompressed reads file size, then verify that the configured minimum is 1.2 times that size.

Written by the indexing model from the issue text.

Assessment

Domain
tooling
Issue type
Feature
Difficulty
4/5
Estimated time
3-5 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
25/100

Get new issues in your inbox

A short digest of beginner-friendly GitHub issues.