Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • Trinity make jellyfish error

    Dear All,
    i downloaded trinityrnaseq_r2013-02-25.tgz. when i used "make" after "tar zxf" it, there were some errors appeared just like that:

    CXX jellyfish/libjellyfish_la-parse_read.lo
    ./jellyfish/divisor.hpp:31: error: '__int128' does not name a type
    ./jellyfish/divisor.hpp: In constructor 'jellyfish::divisor64::divisor64(uint64_t)':
    ./jellyfish/divisor.hpp:39: error: class 'jellyfish::divisor64' does not have any field named 'm_'
    ./jellyfish/divisor.hpp:39: error: expected primary-expression before 'unsigned'
    ./jellyfish/divisor.hpp:39: error: expected `)' before 'unsigned'
    ./jellyfish/divisor.hpp:41: error: expected `)' at end of input
    ./jellyfish/divisor.hpp:41: error: expected `{' at end of input
    ./jellyfish/divisor.hpp: In constructor 'jellyfish::divisor64::divisor64()':
    ./jellyfish/divisor.hpp:46: error: class 'jellyfish::divisor64' does not have any field named 'm_'
    ./jellyfish/divisor.hpp: In member function 'uint64_t jellyfish::divisor64::divide(uint64_t) const':
    ./jellyfish/divisor.hpp:52: error: 'm_' was not declared in this scope
    ./jellyfish/divisor.hpp:56: error: '__int128' does not name a type
    ./jellyfish/divisor.hpp:57: error: 'n_' was not declared in this scope
    ./jellyfish/divisor.hpp: In member function 'uint64_t jellyfish::divisor64::remainder(uint64_t) const':
    ./jellyfish/divisor.hpp:66: error: 'm_' was not declared in this scope
    ./jellyfish/divisor.hpp: In member function 'void jellyfish::divisor64::division(uint64_t, uint64_t&, uint64_t&) const':
    ./jellyfish/divisor.hpp:81: error: 'm_' was not declared in this scope
    ./jellyfish/divisor.hpp: In member function 'uint64_t jellyfish::divisor64::m() const':
    ./jellyfish/divisor.hpp:107: error: 'm_' was not declared in this scope
    make[2]: *** [jellyfish/libjellyfish_la-parse_read.lo] Error 1
    make[2]: Leaving directory `/disk3/anhong/test/biosoft/trinityrnaseq_r2013-02-25/trinity-plugins/jellyfish-1.1.6'
    make[1]: *** [all] Error 2
    make[1]: Leaving directory `/disk3/anhong/test/biosoft/trinityrnaseq_r2013-02-25/trinity-plugins/jellyfish-1.1.6'
    make: *** [all] Error 2

    how can i fix it

    best wish

  • #2
    Originally posted by letusgo View Post
    Dear All,
    i downloaded trinityrnaseq_r2013-02-25.tgz. when i used "make" after "tar zxf" it, there were some errors appeared just like that:

    CXX jellyfish/libjellyfish_la-parse_read.lo
    ./jellyfish/divisor.hpp:31: error: '__int128' does not name a type
    ./jellyfish/divisor.hpp: In constructor 'jellyfish::divisor64::divisor64(uint64_t)':
    ./jellyfish/divisor.hpp:39: error: class 'jellyfish::divisor64' does not have any field named 'm_'
    ./jellyfish/divisor.hpp:39: error: expected primary-expression before 'unsigned'
    ./jellyfish/divisor.hpp:39: error: expected `)' before 'unsigned'
    ./jellyfish/divisor.hpp:41: error: expected `)' at end of input
    ./jellyfish/divisor.hpp:41: error: expected `{' at end of input
    ./jellyfish/divisor.hpp: In constructor 'jellyfish::divisor64::divisor64()':
    ./jellyfish/divisor.hpp:46: error: class 'jellyfish::divisor64' does not have any field named 'm_'
    ./jellyfish/divisor.hpp: In member function 'uint64_t jellyfish::divisor64::divide(uint64_t) const':
    ./jellyfish/divisor.hpp:52: error: 'm_' was not declared in this scope
    ./jellyfish/divisor.hpp:56: error: '__int128' does not name a type
    ./jellyfish/divisor.hpp:57: error: 'n_' was not declared in this scope
    ./jellyfish/divisor.hpp: In member function 'uint64_t jellyfish::divisor64::remainder(uint64_t) const':
    ./jellyfish/divisor.hpp:66: error: 'm_' was not declared in this scope
    ./jellyfish/divisor.hpp: In member function 'void jellyfish::divisor64::division(uint64_t, uint64_t&, uint64_t&) const':
    ./jellyfish/divisor.hpp:81: error: 'm_' was not declared in this scope
    ./jellyfish/divisor.hpp: In member function 'uint64_t jellyfish::divisor64::m() const':
    ./jellyfish/divisor.hpp:107: error: 'm_' was not declared in this scope
    make[2]: *** [jellyfish/libjellyfish_la-parse_read.lo] Error 1
    make[2]: Leaving directory `/disk3/anhong/test/biosoft/trinityrnaseq_r2013-02-25/trinity-plugins/jellyfish-1.1.6'
    make[1]: *** [all] Error 2
    make[1]: Leaving directory `/disk3/anhong/test/biosoft/trinityrnaseq_r2013-02-25/trinity-plugins/jellyfish-1.1.6'
    make: *** [all] Error 2

    how can i fix it

    best wish
    The __int128 type is an extension of the C language supported/introduced by recent versions of the GNU C compiler. As far as I can see it was introduced in GCC 4.6. You probably need a newer compiler to compile this code.

    Comment

    Latest Articles

    Collapse

    • seqadmin
      Latest Developments in Precision Medicine
      by seqadmin



      Technological advances have led to drastic improvements in the field of precision medicine, enabling more personalized approaches to treatment. This article explores four leading groups that are overcoming many of the challenges of genomic profiling and precision medicine through their innovative platforms and technologies.

      Somatic Genomics
      “We have such a tremendous amount of genetic diversity that exists within each of us, and not just between us as individuals,”...
      Yesterday, 01:16 PM
    • 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

    ad_right_rmr

    Collapse

    News

    Collapse

    Topics Statistics Last Post
    Started by seqadmin, Yesterday, 07:15 AM
    0 responses
    13 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 05-23-2024, 10:28 AM
    0 responses
    17 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 05-23-2024, 07:35 AM
    0 responses
    20 views
    0 likes
    Last Post seqadmin  
    Started by seqadmin, 05-22-2024, 02:06 PM
    0 responses
    10 views
    0 likes
    Last Post seqadmin  
    Working...
    X