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                                            李经纬

file.path("", "../path/file") and intermediates_dir make Rmarkdown create <intermediates_dir>/../path/file

Thank you > To clarify the context, why do you need to set the intermediates_dir to a different folder using absolute path ? > > This is not an expected...

Use chat-ui behind nginx proxy

It works previously but not now. Will this be fixed in the future?

`load_dataset` uses out-of-date cache instead of re-downloading a changed dataset

I meet a similar problem as using loading scripts. I have to set download_mode='force_redownload' to load the latest script.

datasets cannot handle nested json if features is given.

> Hi ! `Sequence` has a weird behavior for dictionaries (from tensorflow-datasets), use a regular list instead: > > ```python > ds = datasets.load_dataset('json', data_files="./temp.json", features=datasets.Features({ > 'ref1': datasets.Value('string'), >...

datasets cannot handle nested json if features is given.

It works.

Output .bed file not found in the MACS2 folder

Hello. It seems that this pipeline need input sample (control) to call peak. No control not peak.

Not a valid path value when provide genome by fasta and gtf in compressed gz format, and not providing genome index or gene bed

Thank you very mush. It seems a little complex for me. Do you have a plan to fix this directly in the repository https://github.com/nf-core/chipseq/blob/master/subworkflows/local/prepare_genome.nf so that others can get rid...

Neither `from matplotlib.cm import register_cmap` nor `from matplotlib.colormaps import register` works in cooltools 0.7.1 for supporting `matplotlib 3.9`

```python Python 3.11.10 | packaged by conda-forge | (main, Oct 16 2024, 01:27:36) [GCC 13.3.0] on linux Type "help", "copyright", "credits" or "license" for more information. >>> import matplotlib >>>...

Neither `from matplotlib.cm import register_cmap` nor `from matplotlib.colormaps import register` works in cooltools 0.7.1 for supporting `matplotlib 3.9`

Will the fix be merged to version 0.7.2?

`bioconda-utils build` errors with `clangxx_osx-arm64 16.* does not exist (perhaps a typo or a missing channel).`

I fix this by add skip: True # [not linux]. ```yaml build: skip: True # [not linux] ``` It seems that the jinja2 `complier()` does not work correctly if the...