galaxyproject / galaxyproject/training-material

tutorial workflow issues

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transcriptomics
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Description

Hey, i was tring to set up some workflow from tutorial web(https://training.galaxyproject.org/) such as [https://training.galaxyproject.org/training-material/topics/transcriptomics/tutorials/srna/workflows/sRNA_seq_Step_1_Read_preprocessing_and_removal_of_artifacts.ga](url), i find out that many workflows had this issue that the input file type were datasets collection , can't map to the following tools which need datasets. And i can't change the input datatype on these tools. I can only change the datatype of the input data, which make the logic of workflow disorder.
In this example :
tool **Trim Galore** ' out put is dataset collection , and the downstream tool **HISAT2** input was datasets(did not find a way to change).

Contributor guide

Open the contributing guide

Research direction

Open the linked sRNA-seq workflow and reproduce the connection between Trim Galore and HISAT2 in Galaxy. Inspect how the workflow declares the output collection and downstream input, then check related tutorial workflow files; done means the workflow connects compatible data types without requiring users to alter input types or disrupting its logic.

Written by the indexing model from the issue text.

Assessment

Domain
bioinformatics
Issue type
Bug
Difficulty
3/5
Estimated time
1-2 days
Activity status
Stale
Clarity
Mostly clear
Newbie friendliness
35/100

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