Product too long: SWI/SNF-related matrix-associated....

[JWDebler]

Hi,
I just cloned the repo and ran the script. It then complained about something that is already in the list:

update-gene2product.py Gene2Products.new-names-passed.txt

Product too long: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related
Traceback (most recent call last):
  File "./update-gene2product.py", line 38, in <module>
    product = raw_input("Product for %s: " % name)
NameError: name 'raw_input' is not defined

Removing that particular line fixes it. Is there a hard product length limit for NCBI?
Cheers

[hyphaltip]

There is a limit to product length hence the message, but that’s a Python error in the code relying on a mis specified function I think. This should just report the problem line but not crash. We can fix that logic / missing function but either way you want to limit the length of products. I typically look at uniprot for comparable product descriptions if I need to curate. The eggnog derived products are often not a good suggestion.

On Thu, May 4, 2023 at 1:49 AM Johannes Debler ***@***.***> wrote: Hi, I just cloned the repo and ran the script. It then complained about something that is already in the list: update-gene2product.py Gene2Products.new-names-passed.txt Product too long: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily E member 1-related Traceback (most recent call last): File "./update-gene2product.py", line 38, in <module> product = raw_input("Product for %s: " % name) NameError: name 'raw_input' is not defined Removing that particular line fixes it. Is there a hard product length limit for NCBI? Cheers — Reply to this email directly, view it on GitHub <#23>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AAAL5O5UITJKQB4OKQPN3TTXENUQ7ANCNFSM6AAAAAAXVPEBQM> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

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