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billgreenwald / pgltools

Paired Genomic Loci Tool Suite
BSD 3-Clause "New" or "Revised" License
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TypeError: formatbedpe() missing 1 required positional argument: 'header' #19

Closed zhanglp996 closed 2 years ago

zhanglp996 commented 2 years ago

Hello! I meet a problem when convert the bedpe format to pgl format using pgltools formatbedpe. Can you help me ? The error is as followed: (base) [zhanglp@bogon test_pgl]$ pgltools formatbedpe test.bedpe Traceback (most recent call last): File "/43t/zhanglp/biosoft/pgltools/pgltools-3.0.1/sh/../Module/PyGLtools/column_flip.py", line 130, in formatbedpe(A) TypeError: formatbedpe() missing 1 required positional argument: 'header'

And the test.bepe is the same as your Proper Formatting.

billgreenwald commented 2 years ago

Hey there, sorry about that. Seems I created a syntax error when I upgraded to version 3.0.0. This has been fixed in 3.0.1 and tests are added to hopefully capture in the future. Let me know if something else doesn't work and I will try to fix it ASAP as well.

Fixed in: https://github.com/billgreenwald/pgltools/pull/20

zhanglp996 commented 2 years ago

Thank you very much! The problem have been fixed in 3.0.1 that you recently published

------------------ 原始邮件 ------------------ 发件人: "billgreenwald/pgltools" @.>; 发送时间: 2022年11月23日(星期三) 晚上11:48 @.>; @.**@.>; 主题: Re: [billgreenwald/pgltools] TypeError: formatbedpe() missing 1 required positional argument: 'header' (Issue #19)

Hey there, sorry about that. Seems I created a syntax error when I upgraded to version 3.0.0. This has been fixed in 3.0.1 and tests are added to hopefully capture in the future. Let me know if something else doesn't work and I will try to fix it ASAP as well.

Fixed in:

20

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