Package: e-PCR
Version: 2.3.12
When I try to build the e-PCR program, a variety of errors occur. The build
command I use is:
make LF64LDFLAGS= LF64CCFLAGS=-DNATIVE_LARGEFILES
I am using OSX Yosemite V10.10.3, with Xcode 5.02 and Xcode command line tools
installed.
I was able to fix the errors with these code changes:
1. Uncomment '#include <sstream>' in mmap.cpp
2. Add these includes to epcr/minilcs.hpp:
#include <cstdlib>
#include <sstream>
With these changes the build succeeds but several warnings are issued. Some
include a description of how these warnings can be eliminated with code changes
(that seem like reasonable changes). I was able to eliminate the warnings with
this command line:
make LF64LDFLAGS= LF64CCFLAGS=-DNATIVE_LARGEFILES COMMON_CC_FLAGS=-w
I suggest that the above command line be included in the BUILD.html and
BUILD.txt files under the OSX section. The warnings are:
stsfilter.cpp:47:49: warning: '&&' within '||' [-Wlogical-op-parentheses]
return (o1.pos2<o2.pos2 || o1.pos2==o2.pos2 && o1.pos1<o2.pos1);
~~ ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~
stsfilter.cpp:47:49: note: place parentheses around the '&&' expression to
silence this warning
fahash_lookup.cpp:343:38: warning: '&&' within '||' [-Wlogical-op-parentheses]
return sid < s.sid || sid == s.sid && pos < s.pos;
~~ ~~~~~~~~~~~~~^~~~~~~~~~~~~~
fahash_lookup.cpp:343:38: note: place parentheses around the '&&' expression to
silence this warning
fahash_lookup.cpp:385:60: warning: '&&' within '||' [-Wlogical-op-parentheses]
( gaps() < h.gaps() || gaps() == h.gaps() &&
~~ ~~~~~~~~~~~~~~~~~~~^~
fahash_lookup.cpp:385:60: note: place parentheses around the '&&' expression to
silence this warning
^
fahash_lookup.cpp:384:52: warning: '&&' within '||' [-Wlogical-op-parentheses]
( pos2 < h.pos2 || pos2 == h.pos2 &&
~~ ~~~~~~~~~~~~~~~^~
fahash_lookup.cpp:384:52: note: place parentheses around the '&&' expression to
silence this warning
^
fahash_lookup.cpp:383:52: warning: '&&' within '||' [-Wlogical-op-parentheses]
return pos1 < h.pos1 || pos1 == h.pos1 &&
~~ ~~~~~~~~~~~~~~~^~
fahash_lookup.cpp:383:52: note: place parentheses around the '&&' expression to
silence this warning
^
fahash_lookup.cpp:435:54: warning: '&&' within '||' [-Wlogical-op-parentheses]
return ( o1.pos2 < o2.pos2 || o1.pos2 == o2.pos2 && o1.pos1 < o2.pos1 );
~~ ~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~
fahash_lookup.cpp:435:54: note: place parentheses around the '&&' expression to
silence this warning
fahash_main.cpp:257:9: warning: enumeration value 'eNone' not handled in switch
[-Wswitch]
switch(command) {
^
fahash_main.cpp:261:1: warning: control may reach end of non-void function
[-Wreturn-type]
}
^
re-PCR_main.cpp:345:9: warning: enumeration value 'eNone' not handled in switch
[-Wswitch]
switch(command) {
^
re-PCR_main.cpp:349:1: warning: control may reach end of non-void function
[-Wreturn-type]
}
^
re-PCR_main.cpp:488:46: warning: format specifies type 'unsigned int' but the
argument has type 'unsigned long' [-Wformat]
argv[i],fcount+1,fcount+stslist.size());
^~~~~~~~~~~~~~~~~~~~~
re-PCR_main.cpp:502:38: warning: format specifies type 'unsigned int' but the
argument has type 'unsigned long' [-Wformat]
argv[i],fcount+1,fcount+stslist.size());
^~~~~~~~~~~~~~~~~~~~~
--
Ted Toal, Graduate Student, twt...@ucdavis.edu
Brady Lab, UC Davis, Life Sciences 2243
One Shields Ave., Davis, CA 95616, ph: (530) 752-2537
