Announcement

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

  • samtools index file error

    Hello,

    I have to post process the outcome STAR file .bam but when I go to create an index for it I have an error with samtools,


    Code:
    Patrizios-MBP:star patrizio$ samtools index SRR359063.bam
    dyld: Symbol not found: _stdscr
      Referenced from: /Users/patrizio/anaconda3/bin/samtools
      Expected in: /Users/patrizio/anaconda3/bin/../lib/libncursesw.6.dylib
     in /Users/patrizio/anaconda3/bin/samtools
    Abort trap: 6

    I read online and seems to be related with anaconda but I don't know how to fix it, anyone experienced that?

    thank you


    -P

  • #2
    ok probably I solved the problem by using this line command to install a older version of samtools

    conda install -c bioconda samtools=1.9=h8ee4bcc_1


    from this forum discussion


    I'm getting: dyld: Symbol not found: _stdscr Referenced from: /opt/conda/miniconda3/envs/test/bin/samtools Expected in: /opt/conda/miniconda3/envs/test/bin/../lib/libncursesw.6.dylib in /opt/conda/...

    Comment


    • #3
      Samtools 1.9 is the latest version.

      Comment

      Latest Articles

      Collapse

      • seqadmin
        Advanced Tools Transforming the Field of Cytogenomics
        by seqadmin


        At the intersection of cytogenetics and genomics lies the exciting field of cytogenomics. It focuses on studying chromosomes at a molecular scale, involving techniques that analyze either the whole genome or particular DNA sequences to examine variations in structure and behavior at the chromosomal or subchromosomal level. By integrating cytogenetic techniques with genomic analysis, researchers can effectively investigate chromosomal abnormalities related to diseases, particularly...
        09-26-2023, 06:26 AM
      • seqadmin
        How RNA-Seq is Transforming Cancer Studies
        by seqadmin



        Cancer research has been transformed through numerous molecular techniques, with RNA sequencing (RNA-seq) playing a crucial role in understanding the complexity of the disease. Maša Ivin, Ph.D., Scientific Writer at Lexogen, and Yvonne Goepel Ph.D., Product Manager at Lexogen, remarked that “The high-throughput nature of RNA-seq allows for rapid profiling and deep exploration of the transcriptome.” They emphasized its indispensable role in cancer research, aiding in biomarker...
        09-07-2023, 11:15 PM
      • seqadmin
        Methods for Investigating the Transcriptome
        by seqadmin




        Ribonucleic acid (RNA) represents a range of diverse molecules that play a crucial role in many cellular processes. From serving as a protein template to regulating genes, the complex processes involving RNA make it a focal point of study for many scientists. This article will spotlight various methods scientists have developed to investigate different RNA subtypes and the broader transcriptome.

        Whole Transcriptome RNA-seq
        Whole transcriptome sequencing...
        08-31-2023, 11:07 AM

      ad_right_rmr

      Collapse

      News

      Collapse

      Topics Statistics Last Post
      Started by seqadmin, Yesterday, 06:57 AM
      0 responses
      6 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 09-26-2023, 07:53 AM
      0 responses
      8 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 09-25-2023, 07:42 AM
      0 responses
      14 views
      0 likes
      Last Post seqadmin  
      Started by seqadmin, 09-22-2023, 09:05 AM
      0 responses
      44 views
      0 likes
      Last Post seqadmin  
      Working...
      X