Bio++ Program Suite - Bugs: bug #16589, invalid conversion from... [Gna!]

Bio++ Program Suite - Bugs: bug #16589, invalid conversion from...

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bug #16589: invalid conversion from ‘bpp::SequenceContainer’ to ‘bpp::SiteContainer’

Submitted by:	Loic Dachary <loic>
Submitted on:	Mon 30 Aug 2010 07:57:23 AM UTC

Category:	None	Severity:	4 - Important
Priority:	5 - Normal	Status:	None
Privacy:	Public	Assigned to:	None
Open/Closed:	Open

Mon 30 Aug 2010 08:11:00 AM UTC, comment #1:

I believe the attached patch fixes the issue.

(file #10090)

Loic Dachary <loic>

Mon 30 Aug 2010 07:57:23 AM UTC, original submission:

When compiling SVN r158 against

ii libbpp-numcalc 1.8.1 The Bio++ NumCalc library.
ii libbpp-numcalc-dev 1.8.1 The Bio++ NumCalc library development files.
ii libbpp-phyl 1.9.1 The Bio++ Phylogenetic library.
ii libbpp-phyl-dev 1.9.1 The Bio++ Phylogenetic library development files.
ii libbpp-seq 1.7.1 The Bio++ Sequence library.
ii libbpp-seq-dev 1.7.1 The Bio++ Sequence library development files.
ii libbpp-utils 1.5.1 The Bio++ Utils library.
ii libbpp-utils-dev 1.5.1 The Bio++ Utils library development files.

I get the following

[ 0%] Built target info
[ 10%] Building CXX object bppSuite/CMakeFiles/bppancestor.dir/bppAncestor.cpp.o
/home/loic/Downloads/bpp/bppsuite/bppSuite/bppAncestor.cpp: In function ‘int main(int, char**)’:
/home/loic/Downloads/bpp/bppsuite/bppSuite/bppAncestor.cpp:447: error: invalid conversion from ‘bpp::SequenceContainer’ to ‘bpp::SiteContainer’
/home/loic/Downloads/bpp/bppsuite/bppSuite/bppAncestor.cpp:447: error: cannot convert from base ‘bpp::SequenceContainer’ to derived type ‘bpp::SiteContainer’ via virtual base ‘bpp::SequenceContainer’
/home/loic/Downloads/bpp/bppsuite/bppSuite/bppAncestor.cpp:452: error: invalid conversion from ‘bpp::SequenceContainer’ to ‘bpp::SiteContainer’
/home/loic/Downloads/bpp/bppsuite/bppSuite/bppAncestor.cpp:452: error: cannot convert from base ‘bpp::SequenceContainer’ to derived type ‘bpp::SiteContainer’ via virtual base ‘bpp::SequenceContainer’
/home/loic/Downloads/bpp/bppsuite/bppSuite/bppAncestor.cpp:454: error: ‘writeAlignmentFile’ is not a member of ‘bpp::SequenceApplicationTools’
make[2]: *** [bppSuite/CMakeFiles/bppancestor.dir/bppAncestor.cpp.o] Error 1
make[1]: *** [bppSuite/CMakeFiles/bppancestor.dir/all] Error 2
make: *** [all] Error 2

Loic Dachary <loic>

Attached Files

file #10090: compile.patch added by loic (424B - text/x-diff)

Depends on the following items: None found

Items that depend on this one: None found

Carbon-Copy List

-unavailable- added by loic (Submitted the item)

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Follows 1 latest change.

Date	Changed By	Updated Field	Previous Value	=>	Replaced By
Mon 30 Aug 2010 08:11:00 AM UTC	loic	Attached File	-		Added compile.patch, #10090

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Bio++ Program Suite - Bugs: bug #16589, invalid conversion from...

bug #16589: invalid conversion from ‘bpp::SequenceContainer*’ to ‘bpp::SiteContainer*’

bug #16589: invalid conversion from ‘bpp::SequenceContainer’ to ‘bpp::SiteContainer’