Seqanswers Leaderboard Ad

Collapse

Announcement

Collapse
No announcement yet.
X
 
  • Filter
  • Time
  • Show
Clear All
new posts

  • #16
    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

    Comment


    • #17
      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???

      Comment


      • #18
        It's a python script, just run it with:

        python sff_extract

        Comment


        • #19
          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

          Comment


          • #20
            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.

            Comment


            • #21
              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.

              Comment


              • #22
                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:

                Comment


                • #23
                  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]

                  Comment


                  • #24
                    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??

                    Comment


                    • #25
                      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:


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

                      Comment

                      Latest Articles

                      Collapse

                      • seqadmin
                        Recent Advances in Sequencing Analysis Tools
                        by seqadmin


                        The sequencing world is rapidly changing due to declining costs, enhanced accuracies, and the advent of newer, cutting-edge instruments. Equally important to these developments are improvements in sequencing analysis, a process that converts vast amounts of raw data into a comprehensible and meaningful form. This complex task requires expertise and the right analysis tools. In this article, we highlight the progress and innovation in sequencing analysis by reviewing several of the...
                        05-06-2024, 07:48 AM
                      • seqadmin
                        Essential Discoveries and Tools in Epitranscriptomics
                        by seqadmin




                        The field of epigenetics has traditionally concentrated more on DNA and how changes like methylation and phosphorylation of histones impact gene expression and regulation. However, our increased understanding of RNA modifications and their importance in cellular processes has led to a rise in epitranscriptomics research. “Epitranscriptomics brings together the concepts of epigenetics and gene expression,” explained Adrien Leger, PhD, Principal Research Scientist...
                        04-22-2024, 07:01 AM

                      ad_right_rmr

                      Collapse

                      News

                      Collapse

                      Topics Statistics Last Post
                      Started by seqadmin, 05-14-2024, 07:03 AM
                      0 responses
                      19 views
                      0 likes
                      Last Post seqadmin  
                      Started by seqadmin, 05-10-2024, 06:35 AM
                      0 responses
                      44 views
                      0 likes
                      Last Post seqadmin  
                      Started by seqadmin, 05-09-2024, 02:46 PM
                      0 responses
                      54 views
                      0 likes
                      Last Post seqadmin  
                      Started by seqadmin, 05-07-2024, 06:57 AM
                      0 responses
                      42 views
                      0 likes
                      Last Post seqadmin  
                      Working...
                      X