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odgi stats: deactivate 1D layout metrics in MultiQC mode #544

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Jan 8, 2024
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odgi stats: deactivate 1D layout metrics in MultiQC mode #544

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8 changes: 4 additions & 4 deletions src/subcommand/stats_main.cpp
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Original file line number Diff line number Diff line change
Expand Up @@ -167,7 +167,7 @@ int main_stats(int argc, char** argv) {

const uint64_t shift = number_bool_packing::unpack_number(graph.get_handle(graph.min_node_id()));

if (args::get(mean_links_length) || args::get(sum_of_path_node_distances) || _multiqc) {
if (args::get(mean_links_length) || args::get(sum_of_path_node_distances)) {
if (number_bool_packing::unpack_number(graph.get_handle(graph.max_node_id())) - shift >= graph.get_node_count()){
std::cerr << "[odgi::stats] error: the node IDs are not compacted. Please run 'odgi sort' using -O, --optimize to optimize the graph." << std::endl;
exit(1);
Expand Down Expand Up @@ -371,7 +371,7 @@ int main_stats(int argc, char** argv) {
// TODO clear all sets?
}

if (args::get(mean_links_length) || args::get(sum_of_path_node_distances) || _multiqc) {
if (args::get(mean_links_length) || args::get(sum_of_path_node_distances)) {
// This vector is needed for computing the metrics in 1D and for detecting gap-links
std::vector<uint64_t> position_map(graph.get_node_count() + 1);

Expand Down Expand Up @@ -409,7 +409,7 @@ int main_stats(int argc, char** argv) {
position_map[position_map.size() - 1] = len;
}

if (args::get(mean_links_length) || _multiqc){
if (args::get(mean_links_length)){
bool _dont_penalize_gap_links = args::get(dont_penalize_gap_links);

uint64_t sum_all_node_space = 0;
Expand Down Expand Up @@ -582,7 +582,7 @@ int main_stats(int argc, char** argv) {
}
}

if (args::get(sum_of_path_node_distances) || _multiqc){
if (args::get(sum_of_path_node_distances)){
bool _penalize_diff_orientation = args::get(penalize_diff_orientation);

uint64_t sum_all_path_node_dist_node_space = 0;
Expand Down
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