diff options
| author | Jason W. Bacon <jwb@FreeBSD.org> | 2019-08-13 15:30:21 +0000 |
|---|---|---|
| committer | Jason W. Bacon <jwb@FreeBSD.org> | 2019-08-13 15:30:21 +0000 |
| commit | cdd2c0e9b9f34e168dabfc1b3654658dcaa1cdee (patch) | |
| tree | a89cdbda6001bb8ea69b39a4b346b43e8dd5865e /biology/bolt-lmm/files/patch-src_LDscoreCalibration.cpp | |
| parent | Drop nop PORTREVISION_19 from devel/subversion addon ports (diff) | |
biology/bolt-lmm: Upgrade to 2.3.4
Remove previously upstreamed patches
New Makefile patch that preserves default behavior and should be palatable
to upstream
Diffstat (limited to 'biology/bolt-lmm/files/patch-src_LDscoreCalibration.cpp')
| -rw-r--r-- | biology/bolt-lmm/files/patch-src_LDscoreCalibration.cpp | 24 |
1 files changed, 0 insertions, 24 deletions
diff --git a/biology/bolt-lmm/files/patch-src_LDscoreCalibration.cpp b/biology/bolt-lmm/files/patch-src_LDscoreCalibration.cpp deleted file mode 100644 index 51a1ef896340..000000000000 --- a/biology/bolt-lmm/files/patch-src_LDscoreCalibration.cpp +++ /dev/null @@ -1,24 +0,0 @@ ---- src/LDscoreCalibration.cpp.orig 2019-08-03 00:18:05 UTC -+++ src/LDscoreCalibration.cpp -@@ -201,8 +201,8 @@ namespace LDscoreCalibration { - snps[m].MAF >= minMAF && // MAF threshold - statsRef[m] > 0 && // ref stat available - statsCur[m] > 0 && // cur stat available -- !isnan(LDscores[m]) && // LD Score available -- !isnan(LDscoresChip[m]); // LD Score weight available -+ !std::isnan(LDscores[m]) && // LD Score available -+ !std::isnan(LDscoresChip[m]); // LD Score weight available - - // perform outlier removal - double outlierChisqThresh = std::max(MIN_OUTLIER_CHISQ_THRESH, N * outlierVarFracThresh); -@@ -256,8 +256,8 @@ namespace LDscoreCalibration { - maskSnps[m] = - snps[m].MAF >= minMAF && // MAF threshold - stats[m] > 0 && // stat available -- !isnan(LDscores[m]) && // LD Score available -- !isnan(LDscoresChip[m]); // LD Score weight available -+ !std::isnan(LDscores[m]) && // LD Score available -+ !std::isnan(LDscoresChip[m]); // LD Score weight available - - // perform outlier removal - double outlierChisqThresh = std::max(MIN_OUTLIER_CHISQ_THRESH, N * outlierVarFracThresh); |