[Bioperl-l] RE: Bioperl 1.2.alpha testing under cygwin. Was RE: [Bioperl-l] 1.2- alpha-1 tar file built

[Nash, John]

>From: Ewan Birney [mailto:birney@ebi.ac.uk]
>Sent: Tuesday, December 24, 2002 7:36 AM
>> ------------- EXCEPTION  -------------
>> MSG: Could not open >searchio.out for reading: Permission denied
>> STACK Bio::Root::IO::_initialize_io Bio/Root/IO.pm:260
>> STACK Bio::Root::IO::new Bio/Root/IO.pm:206
>> STACK Bio::SearchIO::new Bio/SearchIO.pm:123
>> STACK Bio::SearchIO::new Bio/SearchIO.pm:155
>> STACK toplevel t/SearchIO.t:981
>>
>> --------------------------------------
>> dubious
>> 	Test returned status 13 (wstat 3328, 0xd00)
>> DIED. FAILED tests 663-718
>> 	Failed 56/718 tests, 92.20% okay
>>
>This is more worrying - Jason - ideas? I haven't seen this before. Is 
>your file system protections ok (did you run this as a user which could 
>write into the . directory)

Cygwin is kinda weird, it has no su and uses NT privileges/permissions, if I
understand correctly.  The user account I used has "Administrator
privileges", and to be safe, I chmoded the whole subdirectory tree to "777".
I don't usually have permissions problems with Perl programs or "make".

John