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guix/gnu/packages/patches/plink-1.07-unclobber-i.patch
Ricardo Wurmus cc6ed47737 gnu: Add plink.
* gnu/packages/bioinformatics.scm (plink): New variable.
* gnu/packages/patches/plink-1.07-unclobber-i.patch: New file.
2015-06-29 12:54:48 +02:00

69 lines
2 KiB
Diff

GCC rightfully complains about redefined variables, as iterator declarations
appear inside loops with a loop variable of the same name.
This patch has been sent upstream.
--- a/sets.cpp 2015-06-25 11:22:08.252821681 +0200
+++ b/sets.cpp 2015-06-25 11:22:23.239187985 +0200
@@ -768,11 +768,11 @@
//////////////////////////////////////////////
// Reset original missing status
- vector<Individual*>::iterator i = PP->sample.begin();
- while ( i != PP->sample.end() )
+ vector<Individual*>::iterator it = PP->sample.begin();
+ while ( it != PP->sample.end() )
{
- (*i)->missing = (*i)->flag;
- ++i;
+ (*it)->missing = (*it)->flag;
+ ++it;
}
////////////////////////////////////////////////
--- a/elf.cpp 2009-10-10 18:00:21.000000000 +0200
+++ b/elf.cpp 2015-06-25 11:34:06.136835756 +0200
@@ -1175,10 +1175,10 @@
<< setw(8) << gcnt << " "
<< setw(8) << (double)cnt / (double)gcnt << "\n";
- map<int,int>::iterator i = chr_cnt.begin();
- while ( i != chr_cnt.end() )
+ map<int,int>::iterator it = chr_cnt.begin();
+ while ( it != chr_cnt.end() )
{
- int c = i->first;
+ int c = it->first;
int x = chr_cnt.find( c )->second;
int y = chr_gcnt.find( c )->second;
@@ -1189,7 +1189,7 @@
<< setw(8) << y << " "
<< setw(8) << (double)x / (double)y << "\n";
- ++i;
+ ++it;
}
}
--- plink-1.07-src/idhelp.cpp 2009-10-10 18:00:22.000000000 +0200
+++ plink-1.07-src/idhelp.cpp.patched 2015-06-25 11:37:39.387204086 +0200
@@ -772,12 +772,12 @@
for (int j = 0 ; j < jointField.size(); j++ )
{
set<IDField*> & jf = jointField[j];
- set<IDField*>::iterator j = jf.begin();
+ set<IDField*>::iterator jit = jf.begin();
PP->printLOG(" { ");
- while ( j != jf.end() )
+ while ( jit != jf.end() )
{
- PP->printLOG( (*j)->name + " " );
- ++j;
+ PP->printLOG( (*jit)->name + " " );
+ ++jit;
}
PP->printLOG(" }");
}