Closed annaship closed 6 years ago
Which version is this, Anna?
Can you please type iu-merge-pairs -v
?
Illumina-utils v2.1
On Sat, Feb 10, 2018 at 5:28 PM, A. Murat Eren notifications@github.com wrote:
Which version is this, Anna?
Can you please type iu-merge-pairs -v?
— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/merenlab/illumina-utils/issues/14#issuecomment-364700849, or mute the thread https://github.com/notifications/unsubscribe-auth/AALtlsy65ti0MnpRxrxVH8f8xUg-nT0Oks5tThgTgaJpZM4SBGbg .
Crap :/
Can you please replace the /groups/vampsweb/seqinfobin/anaconda3/lib/python3.6/site-packages/IlluminaUtils/lib/fastalib.py
with this one here and let me know if it works:
https://gist.github.com/meren/e2fd30fa8219246ca4108fb357a6ed56
Thanks,
Now the error message is different:
Traceback (most recent call last):
File "./fastaunique", line 74, in
On Sat, Feb 10, 2018 at 5:45 PM, A. Murat Eren notifications@github.com wrote:
Crap :/
Can you please replace the /groups/vampsweb/seqinfobin/ anaconda3/lib/python3.6/site-packages/IlluminaUtils/lib/fastalib.py with this one here and let me know if it works:
https://gist.github.com/meren/e2fd30fa8219246ca4108fb357a6ed56
Thanks,
— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/merenlab/illumina-utils/issues/14#issuecomment-364701957, or mute the thread https://github.com/notifications/unsubscribe-auth/AALtlpWt3bQL9sBN4Wd_qmGZak7xB5DCks5tThwAgaJpZM4SBGbg .
That is something you need to fix in your file. Try next(input)
OK, thank you!
On Sat, Feb 10, 2018 at 5:50 PM, A. Murat Eren notifications@github.com wrote:
That is something you need to fix in your file. Try next(input)
— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/merenlab/illumina-utils/issues/14#issuecomment-364702262, or mute the thread https://github.com/notifications/unsubscribe-auth/AALtln_DHwp8cRZVIyG-DzuNPJISSrGPks5tTh0rgaJpZM4SBGbg .
It works! Thank you so much!
On Sat, Feb 10, 2018 at 5:51 PM, Anna Shipunova tetya-loshad@yandex.ru wrote:
OK, thank you!
On Sat, Feb 10, 2018 at 5:50 PM, A. Murat Eren notifications@github.com wrote:
That is something you need to fix in your file. Try next(input)
— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/merenlab/illumina-utils/issues/14#issuecomment-364702262, or mute the thread https://github.com/notifications/unsubscribe-auth/AALtln_DHwp8cRZVIyG-DzuNPJISSrGPks5tTh0rgaJpZM4SBGbg .
It works! Thank you so much!
So I will release a new version, and it is better if you use this instead of this hacked version :)
Sure, will do.
On Sat, Feb 10, 2018 at 6:01 PM, A. Murat Eren notifications@github.com wrote:
So I will release a new version, and it is better if you use this instead of this hacked version :)
— You are receiving this because you modified the open/close state. Reply to this email directly, view it on GitHub https://github.com/merenlab/illumina-utils/issues/14#issuecomment-364702996, or mute the thread https://github.com/notifications/unsubscribe-auth/AALtlrpG_z6ob60yoKMcHfjfRdc0X7TXks5tTh_LgaJpZM4SBGbg .
Hi Meren, We finally switched to python3 and now I have a problem: /groups/vampsweb/seqinfobin/anaconda3/bin/python3 ./fastaunique TTAGGC_NNNNTCAGC_1_MERGED_V6_PRIMERS_REMOVED Traceback (most recent call last): File "./fastaunique", line 74, in
main(args)
File "./fastaunique", line 13, in main
input = u.SequenceSource(args.input_fasta, unique = True)
File "/groups/vampsweb/seqinfobin/anaconda3/lib/python3.6/site-packages/IlluminaUtils/lib/fastalib.py", line 94, in init
self.init_unique_hash()
File "/groups/vampsweb/seqinfobin/anaconda3/lib/python3.6/site-packages/IlluminaUtils/lib/fastalib.py", line 98, in init_unique_hash
hash = hashlib.sha1(self.seq.upper()).hexdigest()
TypeError: Unicode-objects must be encoded before hashing