[Jose Blanca]

Don't worry I'm on the thread too, we'll talk there. In the mean time you can use the old sff_extract.
Regards,

Jose Blanca

[chayan]

Dear Blanca
i am very mush new to this. Every time i tried to down load the old sff_extract version, the whole page opened and i don't know what to do with this. What should i do???

[Jose Blanca]

It's a python script, just run it with:

python sff_extract

[chayan]

Hii all,
dont know what to do with this error msg. getting this always when trying t run the non-seqcrumb version of sff_extract..

Traceback (most recent call last):
File "/home/lab/Desktop/sff_extract_0_3_0", line 39, in <module>
import tempfile
File "/home/lab/qiime_software/python-2.7.1-release/lib/python2.7/tempfile.py", line 34, in <module>
from random import Random as _Random
File "/home/lab/qiime_software/python-2.7.1-release/lib/python2.7/random.py", line 49, in <module>
import hashlib as _hashlib
File "/home/lab/qiime_software/python-2.7.1-release/lib/python2.7/hashlib.py", line 136, in <module>
globals()[__func_name] = __get_hash(__func_name)
File "/home/lab/qiime_software/python-2.7.1-release/lib/python2.7/hashlib.py", line 74, in __get_builtin_constructor
import _sha256
ImportError: No module named _sha256



any help???

Regards
Chayan

[GenoMax]

You may be missing the "libsasl2-dev" library. Depending on the flavor of linux you are using you will need to find and install it.

[chayan]

hii, sorry to say that i dont have much knowladge about linux and all this. What i understood from your previous reply, i install "libsasl2-dev" with the following command sudo apt-get install libsasl2-dev

still the same error msg it showing... sorry if i missed anything particular.

[Jose Blanca]

Which python version are you using? Are you using python 2.7? It's a strange problem because that missing module belongs to the standard library.
The newest sff_extract is now included in a package named seq_crumbs. To avoid these problems we are also distributing binary versions of these scripts. These binaries might work for you. You can download them from:

http://bioinf.comav.upv.es/seq_crumbs/download.html

[maubp]

You can get missing core library modules like this if your Python was compiled without the underlying dependencies and their C headers. Perhaps you (or your systems administrator) can check that.

[This would not explain things if you used a pre-compiled Python from python.org, like the Windows installers]

[chayan]

My python version is 2.7.1.. sadly it seems that both the source distribution and binary distribution of latest "seq_crumbs 0.1.7" is unavailable right now to download. Additionally can you please tell me wheather this newest sff_extract can give the output in traceinfo/.xml format which are not possible with the 0.1.6 version??

[Jose Blanca]

The newest sff_extract can not create the traceinfo xml file. We have to add it to the new sff_extract, we add it to the TODO. If you need that functionallity you can use the old sff_extract:

http://bioinf.comav.upv.es/sff_extract/download.html

The latest new one you can always get it at github, but sff_extract have not been changed for a while.