On Dec 4, 2007, at 1:07 AM, Daniel Macks wrote:
> In particular,
> it's supplied by the deprecated_Emboss_str.o file in the
> bio-emboss-pm586 build dir ("nm" on that file reports it as "T").
Ahaaa - because I earlier got many warnings for deprecacted files (eg
deprecated_Emboss_str.c:3878: wa
On Tue, Dec 04, 2007 at 01:07:42AM -0500, Daniel Macks wrote:
> Bug that doesn't affect anything: in the bio-emboss-pm.patch,
> $EMB_EXT_LIBS should be "[EMAIL PROTECTED]@/lib" (need to pass the actual
> linker flag, not just the pathname where the libs are).
Or actually, don't need to pass anythi
On Mon, Dec 03, 2007 at 09:43:51PM -0500, Koen van der Drift wrote:
> First of all, thanks for all the help and suggestions. Little by
> little I am undestanding more of the whole building process.
>
> Now for the results :)
>
> Using JF's test, I don't see any errors, ie nm doesn't print any
On Dec 3, 2007, at 10:01 PM, Peter O'Gorman wrote:
> Yes, but the loader is not looking for ajStrTokenCount, it is looking
> for XS_Bio__Emboss_ajStrTokenCount. And that is undefined.
>
> Did you do jfm's magic on Emboss.bundle?
that gives:
Macintosh:Emboss koen$ nm -mgu Emboss.bundle | fgrep
Koen van der Drift wrote:
> First of all, thanks for all the help and suggestions. Little by little
> I am undestanding more of the whole building process.
>
> Now for the results :)
> Unfortunately, I still get the same error:
>
> t/1Can't load
> '/sw/src/fink.build/bio-emboss-pm588-5.0.0.1
First of all, thanks for all the help and suggestions. Little by
little I am undestanding more of the whole building process.
Now for the results :)
Using JF's test, I don't see any errors, ie nm doesn't print any
symbol names. (BTW, could that script be useful in the validation code
of fin
On 03 Dec 2007, at 07:02, Peter O'Gorman wrote:
> Jean-François Mertens wrote:
>>>
>> On 03 Dec 2007, at 05:35, Peter O'Gorman wrote:
>>
>>>
>>> Did you check with otool -L that libeplplot loads libX11?
>>
>> But I see that Peter will give you a quicker fix - at least for
>> this specific problem
On Mon, Dec 03, 2007 at 12:58:18AM -0500, Daniel Macks wrote:
> Hooray for upstream bugs!
>
> All of the shared libraried in emboss-5.0.0-3 are deficient in their
> linkages. They don't link any other libraries, yet they all use
> symbols from other libraries. See attached file for output from the
Hooray for upstream bugs!
All of the shared libraried in emboss-5.0.0-3 are deficient in their
linkages. They don't link any other libraries, yet they all use
symbols from other libraries. See attached file for output from the
"fink-dyld-link-test" thing in my experimental/ directory on cvs.sf to
On 03 Dec 2007, at 05:59, Koen van der Drift wrote:
>
> On Dec 2, 2007, at 11:49 PM, Jean-François Mertens wrote:
>
>> But I see that Peter will give you a quicker fix - at least for
>> this specific problem - the principle is the same, and if
>> you want to be thorough you go through the check I
>
On 03 Dec 2007, at 05:35, Peter O'Gorman wrote:
>
> Did you check with otool -L that libeplplot loads libX11?
But I see that Peter will give you a quicker fix - at least for
this specific problem - the principle is the same, and if
you want to be thorough you go through the check I
suggested _
On Dec 2, 2007, at 11:35 PM, Peter O'Gorman wrote:
>>
>>
>> However, now I get the following, again similar error:
>>
>> t/1Can't load '/sw/src/fink.build/bio-emboss-pm588-5.0.0.1-1/Bio-
>> Emboss-5.0.0.1/blib/arch/auto/Bio/Emboss/Emboss.bundle' for module
>> Bio::Emboss: dlopen(/sw/src/fink.
Koen van der Drift wrote:
> On Dec 2, 2007, at 10:55 AM, Koen van der Drift wrote:
>> But, I now get another similar error:
>>
>> t/1Can't load '/sw/src/fink.build/bio-emboss-pm588-5.0.0.1-1/Bio-
>> Emboss-5.0.0.1/blib/arch/auto/Bio/Emboss/Emboss.bundle' for module
>> Bio::Emboss: dlopen(/s
On Dec 2, 2007, at 10:55 AM, Koen van der Drift wrote:
>
> On Dec 2, 2007, at 1:07 AM, Peter O'Gorman wrote:
>
>>
>> I suggest that you find out what plsc is (rebuild the package that
>> makes
>> libajaxg.5.dylib, and grep for it) and why it is not available (what
>> provides it? grep -rl plsc
On Dec 2, 2007, at 1:07 AM, Peter O'Gorman wrote:
>
> I suggest that you find out what plsc is (rebuild the package that
> makes
> libajaxg.5.dylib, and grep for it) and why it is not available (what
> provides it? grep -rl plsc /sw/lib
Thanks Peter,
The grep command revealed two broken alias
Koen van der Drift wrote:
> Hi,
>
> I am getting the following error during the test phase of a perl-
> module package on 10.5:
>
> t/1Can't load '/sw/src/fink.build/bio-emboss-pm588-5.0.0.1-1/Bio-
> Emboss-5.0.0.1/blib/arch/auto/Bio/Emboss/Emboss.bundle' for module
> Bio::Emboss: dlopen(
Hi,
I am getting the following error during the test phase of a perl-
module package on 10.5:
t/1Can't load '/sw/src/fink.build/bio-emboss-pm588-5.0.0.1-1/Bio-
Emboss-5.0.0.1/blib/arch/auto/Bio/Emboss/Emboss.bundle' for module
Bio::Emboss: dlopen(/sw/src/fink.build/bio-emboss-pm588-5.0.0.
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