Hello,
Thanks for writing and making seqspec available . I've been exploring using it to streamline our tracking of internal and external NGS metadata.
Something I found for onlist was, I wanted to refer to .tsv files hosted at public URLs by a sequencing vendor, but seqspec expected plain .txt files just consisting of sequences.
This draft PR (commit really) implements the feature to allow for simple YAML specified .tsv-esq to .txt filtering, to (transparently) produce the .txt of sequences seqspec expects. It's not opened as a PR because your CONTRIBUTING.md stated to open an issue first. Let me know if this looks good to open as a PR. It's in both the Python and Rust implementations.
tfallon-ionis@5fb682b
Disclosure: Commit written entirely by GPT 5.6 Sol Medium , but with some oversight.
Best,
-Tim
Hello,
Thanks for writing and making seqspec available . I've been exploring using it to streamline our tracking of internal and external NGS metadata.
Something I found for
onlistwas, I wanted to refer to .tsv files hosted at public URLs by a sequencing vendor, but seqspec expected plain .txt files just consisting of sequences.This draft PR (commit really) implements the feature to allow for simple YAML specified .tsv-esq to .txt filtering, to (transparently) produce the .txt of sequences seqspec expects. It's not opened as a PR because your
CONTRIBUTING.mdstated to open an issue first. Let me know if this looks good to open as a PR. It's in both the Python and Rust implementations.tfallon-ionis@5fb682b
Disclosure: Commit written entirely by GPT 5.6 Sol Medium , but with some oversight.
Best,
-Tim