[Qa-jenkins-scm] Build failed in Jenkins: reproducible_builder_arm64_25 #4411
jenkins at jenkins.debian.net
jenkins at jenkins.debian.net
Thu Feb 16 06:46:06 UTC 2017
https://jenkins.debian.net/job/reproducible_builder_arm64_25/4411/------------------------------------------
[...truncated 181.03 KB...]
fread(blooma, sizeof(unsigned char), nchar, file_data);
^
-g++ -o ../minia/Hash16.o -c ../minia/Hash16.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
-g++ -o ../minia/Terminator.o -c ../minia/Terminator.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o ../minia/Hash16.o -c ../minia/Hash16.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o ../minia/Terminator.o -c ../minia/Terminator.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
../minia/Terminator.cpp: In constructor 'BranchingTerminator::BranchingTerminator(BinaryBank*, uint64_t, Bloom*, Set*)':
../minia/Terminator.cpp:275:182: warning: format '%lld' expects argument of type 'long long int', but argument 5 has type 'uint64_t {aka long unsigned int}' [-Wformat=]
fprintf (stderr,"%cExtrapolating the number of branching kmers from the first %dM kmers: %lld",13,(int)ceilf(nb_extrapolation/1024.0/1024.0),estimated_nb_branching_kmers);
@@ -363,15 +373,15 @@
../minia/Terminator.cpp:337:186: warning: format '%lld' expects argument of type 'long long int', but argument 3 has type 'int64_t {aka long int}' [-Wformat=]
fprintf (stderr,"\nLoaded %lld branching kmers x %lu B = %.1f MB\n",nb_branching_kmers,sizeof(cell<kmer_type>),((1<<NBITS_TERMINATOR)*sizeof(cell<kmer_type>)*1.0)/1024.0/1024.0);
^
-g++ -o ../minia/Kmer.o -c ../minia/Kmer.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
-g++ -o ../minia/Traversal.o -c ../minia/Traversal.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
-g++ -o ../minia/LinearCounter.o -c ../minia/LinearCounter.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
-g++ -o ../minia/Set.o -c ../minia/Set.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o ../minia/Kmer.o -c ../minia/Kmer.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o ../minia/Traversal.o -c ../minia/Traversal.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o ../minia/LinearCounter.o -c ../minia/LinearCounter.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o ../minia/Set.o -c ../minia/Set.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
../minia/Set.cpp: In member function 'void AssocPairedSet::load(char*)':
../minia/Set.cpp:290:82: warning: ignoring return value of 'size_t fread(void*, size_t, size_t, FILE*)', declared with attribute warn_unused_result [-Wunused-result]
fread(&liste_value[0], sizeof(pair_nt_kmer_t), liste_value.size(), file_data);
^
-g++ -o ../minia/Utils.o -c ../minia/Utils.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o ../minia/Utils.o -c ../minia/Utils.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
../minia/Utils.cpp: In function 'uint64_t extrapolate_distinct_kmers_wrapped(long unsigned int, Bank*)':
../minia/Utils.cpp:434:112: warning: format '%lld' expects argument of type 'long long int', but argument 4 has type 'int64_t {aka long int}' [-Wformat=]
if ((NbRead%10000)==0) fprintf (stderr,(char*)"%cExtrapolating number of distinct kmers %lld",13,NbRead);
@@ -392,7 +402,7 @@
../minia/Utils.cpp:225:45: warning: ignoring return value of 'int ftruncate(int, __off_t)', declared with attribute warn_unused_result [-Wunused-result]
ftruncate(fileno(F_kmercpt_read), 0); //erase previous file
^
-g++ -o ../minia/SortingCount.o -c ../minia/SortingCount.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o ../minia/SortingCount.o -c ../minia/SortingCount.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
../minia/SortingCount.cpp: In function 'void sorting_count(Bank*, char*, int, int, bool, int, bool)':
../minia/SortingCount.cpp:56:50: warning: ignoring return value of 'char* getcwd(char*, size_t)', declared with attribute warn_unused_result [-Wunused-result]
getcwd(current_path,sizeof(current_path));
@@ -403,7 +413,7 @@
../minia/SortingCount.cpp:537:56: warning: ignoring return value of 'int system(const char*)', declared with attribute warn_unused_result [-Wunused-result]
system("echo 3 > /proc/sys/vm/drop_caches");
^
-g++ -o ../minia/Debloom.o -c ../minia/Debloom.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o ../minia/Debloom.o -c ../minia/Debloom.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
../minia/Debloom.cpp: In function 'int debloom(int, int)':
../minia/Debloom.cpp:154:106: warning: format '%lld' expects argument of type 'long long int', but argument 4 has type 'uint64_t {aka long unsigned int}' [-Wformat=]
if ((NbSolidKmer%10000)==0) fprintf (stderr,"%c Writing positive Bloom Kmers %lld",13,NbSolidKmer);
@@ -446,37 +456,37 @@
../minia/Debloom.cpp:29:39: warning: ignoring return value of 'int ftruncate(int, __off_t)', declared with attribute warn_unused_result [-Wunused-result]
ftruncate(fileno(F_debloom_write), 0); //erase previous file
^
-g++ -o ../minia/OAHash.o -c ../minia/OAHash.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
-g++ -o Kmer_for_kissnp2.o -c Kmer_for_kissnp2.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
-g++ -o SNP.o -c SNP.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o ../minia/OAHash.o -c ../minia/OAHash.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o Kmer_for_kissnp2.o -c Kmer_for_kissnp2.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o SNP.o -c SNP.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
SNP.cpp: In member function 'void Bubble::find_bubbles(const char*, int, int)':
SNP.cpp:858:49: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 3 has type 'long unsigned int' [-Wformat=]
{printf("%c \t %llu %%",13,(nb*100)/nbel);
^
-g++ -o filter.o -c filter.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
-g++ -o IterativeExtensions.o -c IterativeExtensions.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o filter.o -c filter.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o IterativeExtensions.o -c IterativeExtensions.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
IterativeExtensions.cpp: In static member function 'static void IterativeExtensions::construct_linear_seqs(std::__cxx11::string, std::__cxx11::string, int, std::__cxx11::string, int, int, parcours_t, bool)':
IterativeExtensions.cpp:237:126: warning: format '%d' expects argument of type 'int', but argument 3 has type 'long long int' [-Wformat=]
printf("... XXX Stopped extending node %s because %d nodes reached. Was at depth %d.\n", node, nbNodes, depth);
^
-g++ -o commons.o -c commons.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
-g++ -o kissnp2 ../minia/Pool.o ../minia/Bank.o ../minia/Bloom.o ../minia/Hash16.o ../minia/Terminator.o ../minia/Kmer.o ../minia/Traversal.o ../minia/LinearCounter.o ../minia/Set.o ../minia/Utils.o ../minia/SortingCount.o ../minia/Debloom.o ../minia/OAHash.o Kmer_for_kissnp2.o SNP.o filter.o IterativeExtensions.o commons.o kissnp2.cpp -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER -Wl,-z,relro
+g++ -o commons.o -c commons.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER
+g++ -o kissnp2 ../minia/Pool.o ../minia/Bank.o ../minia/Bloom.o ../minia/Hash16.o ../minia/Terminator.o ../minia/Kmer.o ../minia/Traversal.o ../minia/LinearCounter.o ../minia/Set.o ../minia/Utils.o ../minia/SortingCount.o ../minia/Debloom.o ../minia/OAHash.o Kmer_for_kissnp2.o SNP.o filter.o IterativeExtensions.o commons.o kissnp2.cpp -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissnp2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -O4 -lz -DMINIA_IS_IN_PARENT_FOLDER -Wl,-z,relro
kissnp2.cpp: In function 'int main(int, char**)':
kissnp2.cpp:193:67: warning: format '%llu' expects argument of type 'long long unsigned int', but argument 2 has type 'int64_t {aka long int}' [-Wformat=]
printf(" Will use genome_size=%llu\n", genome_size); //TODO format
^
-make[2]: Leaving directory '/build/1st/discosnp-1.2.6/kissnp2'
+make[2]: Leaving directory '/build/2nd/discosnp-1.2.6/kissnp2'
cd kissreads && make k=29
-make[2]: Entering directory '/build/1st/discosnp-1.2.6/kissreads'
-gcc -o src/coherent_algorithm.o -c src/coherent_algorithm.c -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
-gcc -o src/commons.o -c src/commons.c -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
-gcc -o src/couple.o -c src/couple.c -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
-gcc -o src/extension_algorithm.o -c src/extension_algorithm.c -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
+make[2]: Entering directory '/build/2nd/discosnp-1.2.6/kissreads'
+gcc -o src/coherent_algorithm.o -c src/coherent_algorithm.c -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
+gcc -o src/commons.o -c src/commons.c -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
+gcc -o src/couple.o -c src/couple.c -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
+gcc -o src/extension_algorithm.o -c src/extension_algorithm.c -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
src/extension_algorithm.c: In function 'read_coherence':
src/extension_algorithm.c:312:23: warning: unused variable 'j' [-Wunused-variable]
int read_len, i, ii, j, starter_id, pwi, stop, read_coherence;
^
-gcc -o src/fragment_index.o -c src/fragment_index.c -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
+gcc -o src/fragment_index.o -c src/fragment_index.c -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
src/fragment_index.c: In function 'index_starters_from_input_file':
src/fragment_index.c:148:7: warning: unused variable 'validSeed' [-Wunused-variable]
char validSeed;
@@ -484,11 +494,11 @@
src/fragment_index.c:147:8: warning: unused variable 'j' [-Wunused-variable]
int i,j,z,stop;
^
-gcc -o src/kissReads.o -c src/kissReads.c -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
-gcc -o src/list.o -c src/list.c -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
-gcc -o src/outputs.o -c src/outputs.c -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
-gcc -o src/interface_libchash.o -c src/interface_libchash.c -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
-gcc -o src/libchash.o -c src/libchash.c -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
+gcc -o src/kissReads.o -c src/kissReads.c -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
+gcc -o src/list.o -c src/list.c -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
+gcc -o src/outputs.o -c src/outputs.c -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
+gcc -o src/interface_libchash.o -c src/interface_libchash.c -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
+gcc -o src/libchash.o -c src/libchash.c -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -I./include/
In file included from src/libchash.c:126:0:
src/libchash.c: In function 'EntriesUpto':
src/libchash.c:468:14: warning: comparison with string literal results in unspecified behavior [-Waddress]
@@ -649,12 +659,12 @@
src/libchash.c:691:18: warning: 'DenseFree' defined but not used [-Wunused-function]
static DenseBin *DenseFree(DenseBin *bin, ulong cBuckets)
^~~~~~~~~
-gcc -o kissreads src/coherent_algorithm.o src/commons.o src/couple.o src/extension_algorithm.o src/fragment_index.o src/kissReads.o src/list.o src/outputs.o src/interface_libchash.o src/libchash.o -g -O2 -fdebug-prefix-map=/build/1st/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -Wl,-z,relro -Wall -lm -O3 -lz
+gcc -o kissreads src/coherent_algorithm.o src/commons.o src/couple.o src/extension_algorithm.o src/fragment_index.o src/kissReads.o src/list.o src/outputs.o src/interface_libchash.o src/libchash.o -g -O2 -fdebug-prefix-map=/build/2nd/discosnp-1.2.6/kissreads=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -O3 -lz -Wl,-z,relro -Wall -lm -O3 -lz
#################
# Compilation OK#
#################
-make[2]: Leaving directory '/build/1st/discosnp-1.2.6/kissreads'
-make[1]: Leaving directory '/build/1st/discosnp-1.2.6'
+make[2]: Leaving directory '/build/2nd/discosnp-1.2.6/kissreads'
+make[1]: Leaving directory '/build/2nd/discosnp-1.2.6'
dh_auto_test
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary
@@ -666,7 +676,7 @@
dh_prep
dh_auto_install
debian/rules override_dh_install
-make[1]: Entering directory '/build/1st/discosnp-1.2.6'
+make[1]: Entering directory '/build/2nd/discosnp-1.2.6'
debian/rules:39: warning: overriding recipe for target 'get-orig-source'
debian/rules:12: warning: ignoring old recipe for target 'get-orig-source'
cp output_analyses/discoSnp_to_genotypes.py output_analyses/discoSnp_to_genotypes
@@ -674,7 +684,7 @@
help2man --help-option=-h --no-discard-stderr --version-string=1.2.6 kissnp2/kissnp2 > kissnp2.1
help2man --help-option=-h --no-discard-stderr --version-string=1.2.6 kissreads/kissreads > kissreads.1
dh_install
-make[1]: Leaving directory '/build/1st/discosnp-1.2.6'
+make[1]: Leaving directory '/build/2nd/discosnp-1.2.6'
dh_installdocs
dh_installchangelogs
dh_installman
@@ -701,12 +711,14 @@
dpkg-source --after-build discosnp-1.2.6
dpkg-buildpackage: info: binary-only upload (no source included)
I: copying local configuration
+I: user script /srv/workspace/pbuilder/8817/tmp/hooks/B01_cleanup starting
+I: user script /srv/workspace/pbuilder/8817/tmp/hooks/B01_cleanup finished
I: unmounting /dev/shm filesystem
I: unmounting dev/pts filesystem
I: unmounting dev/shm filesystem
I: unmounting proc filesystem
I: unmounting sys filesystem
I: cleaning the build env
-I: removing directory /srv/workspace/pbuilder/19586 and its subdirectories
-I: Current time: Wed Mar 21 01:06:26 -12 2018
-I: pbuilder-time-stamp: 1521637586
+I: removing directory /srv/workspace/pbuilder/8817 and its subdirectories
+I: Current time: Thu Feb 16 20:45:50 +14 2017
+I: pbuilder-time-stamp: 1487227550
Compressing the 2nd log...
/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/discosnp_1.2.6-1.diff: 83.2% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/discosnp_1.2.6-1.diff.gz
b2/build.log: 82.2%
+ echo 'Compressing the 1st log...'
Compressing the 1st log...
+ gzip -9cvn b1/build.log
b1/build.log: 82.4%
+ chmod 644 /var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/discosnp_1.2.6-1.build1.log.gz
+ update_rbuildlog
+ chmod 644 /srv/reproducible-results/rbuild-debian-eSqHsjrB/tmp.MZ2cwyrpKo
+ mv /srv/reproducible-results/rbuild-debian-eSqHsjrB/tmp.MZ2cwyrpKo /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/discosnp_1.2.6-1.rbuild.log
+ RBUILDLOG=/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/discosnp_1.2.6-1.rbuild.log
+ '[' 0 -eq 1 ']'
+ '[' 0 -eq 0 ']'
+ filter_changes_files
+ sed -i -e '/^ [a-f0-9]\{32,64\} .*\.buildinfo$/d' b1/discosnp_1.2.6-1_arm64.changes b2/discosnp_1.2.6-1_arm64.changes
+ call_diffoscope_on_changes_files
++ mktemp --tmpdir=/srv/reproducible-results/rbuild-debian-eSqHsjrB
+ local TMPLOG=/srv/reproducible-results/rbuild-debian-eSqHsjrB/tmp.Em8HrpBBA6
+ local TIMEOUT=120m
+ DBDSUITE=unstable
+ '[' unstable = experimental ']'
+ set -x
++ mktemp --tmpdir=/srv/reproducible-results/rbuild-debian-eSqHsjrB -d dbd-tmp-XXXXXXX
+ local TEMP=/srv/reproducible-results/rbuild-debian-eSqHsjrB/dbd-tmp-Oy2wz4z
++ schroot --directory /srv/reproducible-results/rbuild-debian-eSqHsjrB -c source:jenkins-reproducible-unstable-diffoscope diffoscope -- --version
+ DIFFOSCOPE='diffoscope 77'
++ echo diffoscope 77
++ grep '^E: 15binfmt: update-binfmts: unable to open'
++ true
+ LOG_RESULT=
+ '[' '!' -z '' ']'
+ log_info 'diffoscope 77 will be used to compare the two builds:'
+ _log I: 'diffoscope 77 will be used to compare the two builds:'
+ local prefix=I:
+ shift 1
++ date -u
+ tee -a /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/discosnp_1.2.6-1.rbuild.log
+ echo -e 'Thu Feb 16 06:46:04 UTC 2017 I: diffoscope 77 will be used to compare the two builds:'
Thu Feb 16 06:46:04 UTC 2017 I: diffoscope 77 will be used to compare the two builds:
+ set +e
+ set -x
+ timeout 120m nice schroot --directory /srv/reproducible-results/rbuild-debian-eSqHsjrB -c source:jenkins-reproducible-unstable-diffoscope -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian-eSqHsjrB/dbd-tmp-Oy2wz4z ; diffoscope --html /srv/reproducible-results/rbuild-debian-eSqHsjrB/discosnp_1.2.6-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian-eSqHsjrB/discosnp_1.2.6-1.diffoscope.txt --profile=- /srv/reproducible-results/rbuild-debian-eSqHsjrB/b1/discosnp_1.2.6-1_arm64.changes /srv/reproducible-results/rbuild-debian-eSqHsjrB/b2/discosnp_1.2.6-1_arm64.changes'
+ RESULT=0
++ grep '^E: 15binfmt: update-binfmts: unable to open' /srv/reproducible-results/rbuild-debian-eSqHsjrB/tmp.Em8HrpBBA6
++ true
+ LOG_RESULT=
+ '[' '!' -z '' ']'
+ false
+ set +x
Profiling output for: /usr/bin/diffoscope --html /srv/reproducible-results/rbuild-debian-eSqHsjrB/discosnp_1.2.6-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian-eSqHsjrB/discosnp_1.2.6-1.diffoscope.txt --profile=- /srv/reproducible-results/rbuild-debian-eSqHsjrB/b1/discosnp_1.2.6-1_arm64.changes /srv/reproducible-results/rbuild-debian-eSqHsjrB/b2/discosnp_1.2.6-1_arm64.changes
============================================================================================================================================================================================================================================================================================================================================================================================================
command (total time: 0.000s)
----------------------------
0.000s 1 call cmp (internal)
has_same_content_as (total time: 0.000s)
----------------------------------------
0.000s 1 call abc.DotChangesFile
main (total time: 0.303s)
-------------------------
0.303s 2 calls outputs
0.000s 1 call cleanup
recognizes (total time: 0.013s)
-------------------------------
0.013s 10 calls diffoscope.comparators.binary.FilesystemFile
tee: /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/discosnp_1.2.6-1.rbuild.log: No space left on device
Starting cleanup.
/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/discosnp_1.2.6-1.rbuild.log:
gzip: /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/discosnp_1.2.6-1.rbuild.log.gz: No space left on device
Thu 16 Feb 06:46:06 UTC 2017 - /srv/jenkins/bin/reproducible_build.sh stopped running as /tmp/jenkins-script-D7GAjeOm, which will now be removed.
Build step 'Execute shell' marked build as failure
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