[Bioperl-l] AlignIO

[Daniel Campo]

Hi, 
I am trying to install BioPerl in my MacOSX using CPAN.
After running the tests I got the following:



Failed Test                         Stat Wstat Total Fail  List of Failed
-------------------------------------------------------------------------------
t/AlignIO/AlignIO.t                  255 65280    28   42  8-28
t/AlignIO/arp.t                      255 65280    48   92  3-48
t/Annotation/Annotation.t            255 65280   158   83  9 116 118-158
t/ClusterIO/SequenceFamily.t         255 65280    19   34  3-19
t/LocalDB/Flat.t                     255 65280    24   20  15-24
t/LocalDB/Index.t                    255 65280    64   66  32-64
t/SeqIO/Handler.t                    255 65280   561 1120  2-561
t/SeqIO/chaos.t                        1   256     8    1  1
t/SeqIO/swiss.t                      255 65280   240  479  1-240
t/SeqTools/GuessSeqFormat.t            1   256    49    2  25 50
t/Tools/Analysis/Protein/Scansite.t  255 65280    14   20  5-14
63 tests and 305 subtests skipped.
Failed 11/329 test scripts. 981/17708 subtests failed.
Files=329, Tests=17708, 97 wallclock secs (81.97 cusr + 10.56 csys = 92.53 CPU)
Failed 11/329 test programs. 981/17708 subtests failed.
  CJFIELDS/BioPerl-1.6.1.tar.gz
  ./Build test -- NOT OK
//hint// to see the cpan-testers results for installing this module, try:
  reports CJFIELDS/BioPerl-1.6.1.tar.gz
Warning (usually harmless): 'YAML' not installed, will not store persistent state
Running Build install
  make test had returned bad status, won't install without force
Failed during this command:
 CMUNGALL/Data-Stag-0.11.tar.gz               : make NO
 RKOBES/ExtUtils-Manifest-1.58.tar.gz         : install NO
 CJFIELDS/BioPerl-1.6.1.tar.gz                : make_test NO



And my concern is that I need to run a script that needs the module AlignIO. But that module seems to not have passed the test.
Could you please help me on this?
Thank you very much in advance.

Daniel.


---
Daniel Campo Falgueras
Postdoctoral Research Associate
Molecular and Computational Biology
University of Southern California
1050 Childs Way, RRI. 324C
Los Angeles, CA, 90089-2910
(+1) 213-821-3976
dcampo at usc.edu
http://college.usc.edu/cf/faculty-and-staff/staff.cfm?pid=1027679