stkgo

Difficulty running on an M1 Mac

5

I'm running on an M1 Mac with Zulu's jdk8 release. I can run `make build` and it completes without errors, however when I run `make run` I get see the...

Is cryptography 3.4 actually needed?

2

Hello, I see that the install requirements don't lock in a version for cryptography, but the test cases specify

Example of the errors: ``` WARNING rpy2.rinterface_lib.callbacks:callbacks.py:124 R[write to console]: Cannot connect to ExperimentHub server, using 'localHub=TRUE' instead WARNING rpy2.rinterface_lib.callbacks:callbacks.py:124 R[write to console]: Using 'localHub=TRUE' If offline, please also see...

**Describe the bug** I am unable to run the test cases. They all complain with ``` E ModuleNotFoundError: No module named 'scprep' ``` **To Reproduce** Standalone code to reproduce the...

Params dictionary being filled with null values instead of actual values

2

I have a basic test case that looks like the following (I apologize for the screenshot, GitHub's markdown editor gets confused by the Nextflow script block in the when block):...

### Description of bug I have the following config file ``` max_table_rows: 100000 table_columns_placement: general_stats_table: PCT_RIBOSOMAL_BASES: 100 PCT_MRNA_BASES: 200 PCT_PF_READS_ALIGNED: 300 mapped_passed: 350 FOLD_ENRICHMENT: 400 PCT_TARGET_BASES_30X: 500 summed_median: 600 percent_duplicates:...

2 tests in test_setmacro are failing

2

Hello, I am trying to build the package on GNU Guix and am seeing these two tests fail: ``` setmacro, lensmacro isolation: Test Failed at /gnu/store/090nkk2hxasylmc49jx7jqq6i014j98r-julia-setfield-1.1.1/share/julia/loadpath/Setfield/test/test_setmacro.jl:44 Expression: m2 === #=...

Retry and increase resources for CWL files

1

Is there a way to have toil retry a failed step, written in CWL, while allocating more resources to that step? For example, if I set the `--retryCount` to 3...