I have successfully installed and used BEDtools v2 several times on OSX 10.6 machines. However, I'm on a new machine running OSX 10.7.2 and keep getting the following errors in the "make all" building process :
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- Building in src/bamToBed
* compiling bamToBed.cpp
* linking bamToBed
ld: in ../utils//BamTools/lib//libbamtools.a, archive has no table of contents for architecture x86_64
collect2: ld returned 1 exit status
make[1]: *** [bamToBed] Error 1
- Building in src/bedToBam
* compiling bedToBam.cpp
* linking bedToBam
ld: in ../utils//BamTools/lib//libbamtools.a, archive has no table of contents for architecture x86_64
collect2: ld returned 1 exit status
make[1]: *** [bedToBam] Error 1
.
.
.
- Building in src/tagBam
* compiling tagBamMain.cpp
* compiling tagBam.cpp
* linking tagBam
ld: in ../utils//BamTools/lib//libbamtools.a, archive has no table of contents for architecture x86_64
collect2: ld returned 1 exit status
make[1]: *** [tagBam] Error 1
.
.
.
- Building in src/windowBed
* compiling windowMain.cpp
* compiling windowBed.cpp
* linking windowBed
ld: in ../utils//BamTools/lib//libbamtools.a, archive has no table of contents for architecture x86_64
collect2: ld returned 1 exit status
make[1]: *** [windowBed] Error 1
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Afterwards, neither of these tools are found in /bin, and (unsurprisingly) the commands aren't working. I have Googled to no avail. For what it's worth, another similar Lion error occurred here : http://www.mail-archive.com/ape-proj.../msg04086.html
I was looking forward to an easy install after tons of trouble with Tophat, Bowtie, Galaxy, Cufflinks, and Homer, but it's not my day.
The entire "make all" log is attached. Any advice/experience is appreciated. Thanks in advance.
--------------------------------------
- Building in src/bamToBed
* compiling bamToBed.cpp
* linking bamToBed
ld: in ../utils//BamTools/lib//libbamtools.a, archive has no table of contents for architecture x86_64
collect2: ld returned 1 exit status
make[1]: *** [bamToBed] Error 1
- Building in src/bedToBam
* compiling bedToBam.cpp
* linking bedToBam
ld: in ../utils//BamTools/lib//libbamtools.a, archive has no table of contents for architecture x86_64
collect2: ld returned 1 exit status
make[1]: *** [bedToBam] Error 1
.
.
.
- Building in src/tagBam
* compiling tagBamMain.cpp
* compiling tagBam.cpp
* linking tagBam
ld: in ../utils//BamTools/lib//libbamtools.a, archive has no table of contents for architecture x86_64
collect2: ld returned 1 exit status
make[1]: *** [tagBam] Error 1
.
.
.
- Building in src/windowBed
* compiling windowMain.cpp
* compiling windowBed.cpp
* linking windowBed
ld: in ../utils//BamTools/lib//libbamtools.a, archive has no table of contents for architecture x86_64
collect2: ld returned 1 exit status
make[1]: *** [windowBed] Error 1
--------------------------------------
Afterwards, neither of these tools are found in /bin, and (unsurprisingly) the commands aren't working. I have Googled to no avail. For what it's worth, another similar Lion error occurred here : http://www.mail-archive.com/ape-proj.../msg04086.html
I was looking forward to an easy install after tons of trouble with Tophat, Bowtie, Galaxy, Cufflinks, and Homer, but it's not my day.
The entire "make all" log is attached. Any advice/experience is appreciated. Thanks in advance.
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