Seqanswers Leaderboard Ad

Collapse

Announcement

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

  • ohmiyajohn
    replied
    Instruction has a typo

    I found a type in the manual of compiling cufflinks.
    When building the Boost library, it says

    bjam --prefix=<YOUR_BOOST_INSTALL_DIRECTORY> --toolset=gcc architecture=x86 address_model=64 link=static runtime-link=static stage install

    However, the correct command is here:

    bjam --prefix=<YOUR_BOOST_INSTALL_DIRECTORY> --toolset=gcc architecture=x86 address-model=64 link=static runtime-link=static stage install

    "address_model" is wrong, correctly, "address-model".

    Leave a comment:


  • Jon_Keats
    replied
    It looks like an issue with the boost install. What is the configure command you are using before initiating the make command?

    Make sure you have a PATH directory folder with PATHdirectory/include/bam and PATHdirectory/lib were the boost files are in include and lib and the samtools bam file is in the bam folder.

    Check my intro thread if you need detailed instructions

    Leave a comment:


  • aquleaf
    replied
    Help! Does anyone know how to solve the problem?

    Thanks so much in advance.

    Leave a comment:


  • aquleaf
    started a topic Cufflinks building problems

    Cufflinks building problems

    I'm trying to install Cufflinks. After "make", several errors were found.

    Code:
    make  all-recursive
    make[1]: Entering directory `/usr/local/src/cufflinks-1.0.3'
    Making all in src
    make[2]: Entering directory `/usr/local/src/cufflinks-1.0.3/src'
    g++  -Wall -Wno-strict-aliasing -g -gdwarf-2 -Wuninitialized -march=i686 -O3  -DNDEBUG  -pthread -I/usr/local/boost/include -I/usr/local/samtools-0.1.17/include   -o cufflinks -L/usr/local/boost/lib -L/usr/local/samtools-0.1.17/lib  cufflinks.o libcufflinks.a libgc.a -lboost_thread -lbam  -lz 
    /usr/local/boost/lib/libboost_thread.a(thread.o): In function `_ZN5boost2CV23simple_exception_policyItLt1ELt31ENS_9gregorian16bad_day_of_monthEE8on_errorEttNS0_14violation_enumE.clone.79':
    thread.cpp:(.text+0x5d3): undefined reference to `__sync_fetch_and_add_4'
    /usr/local/boost/lib/libboost_thread.a(thread.o): In function `_ZN5boost2CV23simple_exception_policyItLt1400ELt10000ENS_9gregorian8bad_yearEE8on_errorEttNS0_14violation_enumE.clone.96':
    thread.cpp:(.text+0x107b): undefined reference to `__sync_fetch_and_add_4'
    /usr/local/boost/lib/libboost_thread.a(thread.o): In function `_ZN5boost2CV23simple_exception_policyItLt1ELt12ENS_9gregorian9bad_monthEE8on_errorEttNS0_14violation_enumE.clone.97':
    thread.cpp:(.text+0x13df): undefined reference to `__sync_fetch_and_add_4'
    /usr/local/boost/lib/libboost_thread.a(thread.o): In function `_ZN5boost9date_time14microsec_clockINS_10posix_time5ptimeEE11create_timeEPFP2tmPKlS6_E.clone.111':
    thread.cpp:(.text+0x1e3d): undefined reference to `__sync_fetch_and_add_4'
    collect2: ld returned 1 exit status
    make[2]: *** [cufflinks] Error 1
    make[2]:Leaving directory `/usr/local/src/cufflinks-1.0.3/src'
    make[1]: *** [all-recursive] Error 1
    make[1]:Leaving directory `/usr/local/src/cufflinks-1.0.3'
    make: *** [all] Error 2
    What should I do? Wish help! Thanks very much!
    Last edited by aquleaf; 07-29-2011, 07:03 AM.

Latest Articles

Collapse

  • seqadmin
    Exploring the Dynamics of the Tumor Microenvironment
    by seqadmin




    The complexity of cancer is clearly demonstrated in the diverse ecosystem of the tumor microenvironment (TME). The TME is made up of numerous cell types and its development begins with the changes that happen during oncogenesis. “Genomic mutations, copy number changes, epigenetic alterations, and alternative gene expression occur to varying degrees within the affected tumor cells,” explained Andrea O’Hara, Ph.D., Strategic Technical Specialist at Azenta. “As...
    07-08-2024, 03:19 PM
  • seqadmin
    Exploring Human Diversity Through Large-Scale Omics
    by seqadmin


    In 2003, researchers from the Human Genome Project (HGP) announced the most comprehensive genome to date1. Although the genome wasn’t fully completed until nearly 20 years later2, numerous large-scale projects, such as the International HapMap Project and 1000 Genomes Project, continued the HGP's work, capturing extensive variation and genomic diversity within humans. Recently, newer initiatives have significantly increased in scale and expanded beyond genomics, offering a more detailed...
    06-25-2024, 06:43 AM

ad_right_rmr

Collapse

News

Collapse

Topics Statistics Last Post
Started by seqadmin, 07-10-2024, 07:30 AM
0 responses
23 views
0 likes
Last Post seqadmin  
Started by seqadmin, 07-03-2024, 09:45 AM
0 responses
200 views
0 likes
Last Post seqadmin  
Started by seqadmin, 07-03-2024, 08:54 AM
0 responses
209 views
0 likes
Last Post seqadmin  
Started by seqadmin, 07-02-2024, 03:00 PM
0 responses
191 views
0 likes
Last Post seqadmin  
Working...
X