On 27/01/2016 07:45, Robert May wrote:
cyg Simple
OK replaced the two files config.guess and config.sub with a 2016 timestamp and
ran make again.
like samtools it has a couple of warning for terms like
But it does not get the job done.
the problem area seems to be in this area of make
ppuzzle.c: In function ‘PP_Update_Rates’:
ppuzzle.c:258:38: error: ‘PP_UPDATERATES’ undeclared (first use in this
function)
MPI_Send(&dummy, 0, MPI_INT, dest, PP_UPDATERATES, PP_Comm);
two pages later
ppuzzle.c: In function ‘PP_RecvData’:
ppuzzle.c:905:3: warning: ‘MPI_Address’ is deprecated (declared at
/usr/include/mpi.h:1183): MPI_Address is superseded by MPI_Get_address in
MPI-2.0 [-Wdeprecated-declarations]
MPI_Address(&(Seqpat[0][0]), &(Dtypeaddr[0]));
this continues back and forth till we get to the end with
<builtin>: recipe for target 'ppuzzle' failed
make[3]: *** [ppuzzle] Error 1
make[3]: Leaving directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/src'
Makefile:532: recipe for target 'all-recursive' failed
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/src'
Makefile:397: recipe for target 'all' failed
make[1]: *** [all] Error 2
make[1]: Leaving directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/src'
Makefile:370: recipe for target 'all-recursive' failed
make: *** [all-recursive] Error 1
Robert@DESKTOP-14EL82S /usr/local/bin/tree-puzzle-5.3.rc16-windows
I also ran make check
Robert@DESKTOP-14EL82S /usr/local/bin/tree-puzzle-5.3.rc16-windows
$ make check
Making check in src
make[1]: Entering directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/src'
Making check in sprng
make[2]: Entering directory
'/usr/local/bin/tree-puzzle-5.3.rc16-windows/src/sprng'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory
'/usr/local/bin/tree-puzzle-5.3.rc16-windows/src/sprng'
make[2]: Entering directory '/usr/local/bin/tree-puzzle-5.3.rc16-windows/src'
cd sprng && make mlfg.o makeseed.o memory.o checkid.o store.o
make[3]: Entering directory
'/usr/local/bin/tree-puzzle-5.3.rc16-windows/src/sprng'
make[3]: 'mlfg.o' is up to date.
make[3]: 'makeseed.o' is up to date.
make[3]: 'memory.o' is up to date.
make[3]: 'checkid.o' is up to date.
make[3]: 'store.o' is up to date.
make[3]: Leaving directory
'/usr/local/bin/tree-puzzle-5.3.rc16-windows/src/sprng'
gcc -g -O2 sgamma.o sml1.o sml2.o smlparam.o smodel1.o smodel2.o spuzzle1.o
spuzzle2.o spstep.o sutil.o sconsensus.o streesort.o streetest.o sprng/mlfg.o
sprng/makeseed.o sprng/memory.o sprng/checkid.o sprng/store.o -lm -o puzzle.exe
gcc -g -O2 ppuzzle.c -o ppuzzle
ppuzzle.c: In function ‘PP_Update_Rates’:
ppuzzle.c:258:38: error: ‘PP_UPDATERATES’ undeclared (first use in this
function)
MPI_Send(&dummy, 0, MPI_INT, dest, PP_UPDATERATES, PP_Comm);
I can send full make and make check runs if needed
help
Bob
Dear Bob,
"make check" is useless if "make" does not work.
to me it seems you need to work with upstream developer to solve the
different issues.
It is not a cygwin issue that the MPI call are referring to old versions
or that the configure/Makefile.am are wrong handling "$(EXEEXT)"
Please note that
gcc -g -O2 ppuzzle.c -o ppuzzle
is clearly not coming from src/Makefile.am rule:
ppuzzle_SOURCES = gamma.c ml1.c ml2.c mlparam.c model1.c model2.c
puzzle1.c puzzle2.c pstep.c sched.c util.c consensus.c treesort.c
treetest.c ppuzzle.c ml.h util.h puzzle.h pstep.h gamma.h ppuzzle.h
sched.h consensus.h treesort.h treetest.h
so there is an error in the src/Makefile.am
If you change inside it in:
bin_PROGRAMS = puzzle$(EXEEXT) @PPUZZLE@$(EXEEXT)
EXTRA_PROGRAMS = ppuzzle$(EXEEXT)
and then run
autoreconf -ifv
./configure
make
it will compile
Make check will fail but it seems at first glance a rounding issue.
Regards
Marco
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