Commit d1c69bd3 authored by Mathieu Giraud's avatar Mathieu Giraud
Browse files

Merge branch 'feature-a/remove-compiler-warnings' into 'dev'

Remove compiler warnings

See merge request !221
parents 59aa4797 340b02e9
Pipeline #29946 passed with stages
in 34 minutes and 43 seconds
......@@ -88,7 +88,6 @@ BioReader filterBioReaderWithACAutomaton(
};
// Use a set to use the comparator and sort function
set<pair<KmerAffect, int>, Comparator> setOfWords(mapAho.begin(), mapAho.end(), compFunctor);
set<pair<KmerAffect, int>, Comparator>::iterator setIt = setOfWords.begin();
// Iterate over the pair and not the map
int nbKmers = 0, previousOccurences = 0;
for(pair<KmerAffect, int> element : setOfWords){
......
......@@ -288,8 +288,6 @@ int main (int argc, char **argv)
string windows_labels_file = "" ;
bool only_labeled_windows = false ;
char c ;
int options_s_k = 0 ;
double expected_value = THRESHOLD_NB_EXPECTED;
......@@ -370,7 +368,7 @@ int main (int argc, char **argv)
group += "\n (all these options, except -w, are overriden when using -g)";
app.add_flag_function("-q",
[&](size_t n) { indexType = AC_AUTOMATON; },
[&](size_t n) { UNUSED(n); indexType = AC_AUTOMATON; },
"use Aho-Corasick-like automaton (experimental)")
-> group(group) -> level();
......@@ -398,7 +396,7 @@ int main (int argc, char **argv)
app.add_option("-t",
[&](CLI::results_t res) {
bool worked = CLI::detail::lexical_cast(res[0], trim_sequences);
CLI::detail::lexical_cast(res[0], trim_sequences);
trim_sequences_changed = true;
return true;
},
......@@ -469,6 +467,7 @@ int main (int argc, char **argv)
-> group(group) -> set_type_name("INT=" + string_of_int(max_clones));
app.add_flag_function("-A", [&](size_t n) {
UNUSED(n);
ratio_reads_clone = 0 ;
min_reads_clone = 1 ;
max_representatives = NO_LIMIT_VALUE ;
......@@ -560,7 +559,7 @@ int main (int argc, char **argv)
app.set_help_flag("-h", "help")
-> group(group);
app.add_flag_function("-H", [&](size_t n) { throw CLI::CallForAdvancedHelp() ; },
app.add_flag_function("-H", [&](size_t n) { UNUSED(n); throw CLI::CallForAdvancedHelp() ; },
"help, including advanced and experimental options"
"\n "
"The full help is available in the doc/algo.org file.")
......
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