Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • SAMtools will not compile - help please!

    Hi all,

    I am having trouble compiling SAMtools i.e. when I type 'make' in the Unix Terminal, I get the following error:

    make[2]: Nothing to be done for `lib'.
    /bin/sh: line 0: cd: /Users/Jo: No such file or directory
    make[2]: Nothing to be done for `lib'.
    /bin/sh: line 0: cd: /Users/Jo: No such file or directory
    /bin/sh: line 0: cd: misc: No such file or directory
    make[2]: Nothing to be done for `lib'.
    /bin/sh: line 0: cd: /Users/Jo: No such file or directory
    make[1]: *** [lib-recur] Error 1
    make: *** [all-recur] Error 1

    I assume there's a library missing. I have zlib, and have compiled razip.

    This is samtools-0.1.18 on a Mac OS X Lion (10.8.2).

    Any help would be appreciated!

    Jo

  • #2
    This line right here: "cd: /Users/Jo: No such file or directory"
    is giving you a hint? Does the path exist? Maybe your username has a space in it?

    Comment


    • #3
      Yes there is a space - but I'm not really sure how I can get the 'make' command to overcome this?

      Comment


      • #4
        make a new user without any spaces and build it under that user.
        otherwise you will have to edit the makefiles and put quotes around the path...

        Comment


        • #5
          Making a new user seemed excessive so I just put quotations around the paths in the 'makefile' - sorted! Thanks

          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...
            Yesterday, 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, Today, 06:57 AM
          0 responses
          1 view
          0 likes
          Last Post seqadmin  
          Started by seqadmin, Yesterday, 07:17 AM
          0 responses
          12 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, 05-02-2024, 08:06 AM
          0 responses
          19 views
          0 likes
          Last Post seqadmin  
          Started by seqadmin, 04-30-2024, 12:17 PM
          0 responses
          20 views
          0 likes
          Last Post seqadmin  
          Working...
          X