Update tests

fgvieira · Aug 8, 2023 · 7001165 · 7001165
1 parent b4aad96
commit 7001165
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Showing 3 changed files with 11 additions and 16 deletions.
diff --git a/examples/test.md5 b/examples/test.md5
@@ -1,14 +1,12 @@
 4117acdbcfcb4d94522e28ae3c9e8653  testLD_2.beagle
-c91a7bccd60bceff48df2c43fd9987fe  testLD_2-CGf.ld
-6cb3a96e3640d00b2219358b0f930bf5  testLD_2-CG.ld
-3f224593d0eb56e8072ebe3bcb2bd879  testLD_2.ld
-270a8097ea2b1c92736a6124cc2278aa  testLD_2.no_miss.ld
-767175a24be681ed10a6ce27c94af0fa  testLD_3-CGf.ld
-6cb3a96e3640d00b2219358b0f930bf5  testLD_3-CG.ld
-5754513f1316601c0b8bbc9f391ab149  testLD_3.glf
-6bc8145ca32455d3d93dd2761e08a308  testLD_3.ld
+3cac894228279660e493d3068949f4b2  testLD_2-CGf.ld
+0a47aece5c1be388f74dd38cd7b02610  testLD_2-CG.ld
+12e3af34c07f17a74f7566d7275d939c  testLD_2.ld
+143b70193efb0482a02694016e49eeb0  testLD_2.no_miss.ld
+eceb683b54b0a0c9b30195466ef0f67a  testLD_3-CGf.ld
+0a47aece5c1be388f74dd38cd7b02610  testLD_3-CG.ld
+108fd4fb24f9a6257526e77a82d30031  testLD_3.glf
+591b20e9292d2f0cd5b459e63da5db28  testLD_3.ld
 8ed259c70aec0b8cfb8251aa9cc111da  testLD.pos
-3224dff5359674cf0e49d5d2f81c07b2  testLD_pruned.id
-b1a6dfa9b0f1cab19b894a05b6626471  testLD_T.ld
-e1c6d0229bf150ec3a3cf6aa2a5992cf  testLD_Tr.ld
-89c0f5a23906c41dcd71210dbb46eb18  testLD_unlinked.id
+67fe2e3468aae7cca281ff5d3c8ec803  testLD_T.ld
+fbd85b87583510a4b4e8689c1c1b8dc1  testLD_Tr.ld
diff --git a/examples/test.sh b/examples/test.sh
@@ -34,9 +34,6 @@ $ANGSD/angsd -glf $SIM_DATA/testA.glf.gz -fai $SIM_DATA/testAF.ANC.fas.fai -nInd
 ../ngsLD --n_threads 10 --verbose 1 --n_ind $N_IND --n_sites $N_SITES --geno testLD_2.beagle.gz --probs --pos testLD.pos --max_kb_dist 10 --min_maf 0.05 --extend_out --ignore_miss_data | sort -k 1,1V -k 2,2V > testLD_2.no_miss.ld
 gunzip testLD_2.beagle.gz
 
-# LD prunning
-../scripts/prune_graph.pl --in_file testLD_2.ld --max_kb_dist 5 --field_weight 7 --min_weight 0.5 --print_excl testLD_pruned.id | sort -k 1,1V > testLD_unlinked.id
-
 
 
 ##### Check MD5

diff --git a/shared/gen_func.cpp b/shared/gen_func.cpp
@@ -185,7 +185,7 @@ double logsum(double a, double b, double c, double d){
 double round_dec(double val, int dec){
   dec = pow(10, dec);
   return round(val * dec) / dec;
-} 
+}
 
 
 // Remove trailing newlines from strings