From 68fd6549fbdf6c09385e93a4def89c78e36fb23c Mon Sep 17 00:00:00 2001
From: oboulle <olivier.boulle@inria.fr>
Date: Mon, 12 Aug 2024 14:29:54 +0200
Subject: [PATCH] progression print
---
partitioning/fast_clustering_t.cpp | 12 ++++++++++++
1 file changed, 12 insertions(+)
diff --git a/partitioning/fast_clustering_t.cpp b/partitioning/fast_clustering_t.cpp
index dfbad00..180e4be 100755
--- a/partitioning/fast_clustering_t.cpp
+++ b/partitioning/fast_clustering_t.cpp
@@ -87,6 +87,9 @@ void process_file_part(const std::string& input_filename, int part_id, int start
// Process the lines in the file part
std::string read_name;
std::string sequence;
+ int read_count = 0;
+ int total_reads = (end_line - start_line)/4;
+ int step_count = 0;
// process the lines in the file part, add 4 lines to the i counter each loop
for (int i = start_line; i < end_line; i+=4) {
@@ -104,6 +107,14 @@ void process_file_part(const std::string& input_filename, int part_id, int start
// find the position fo the primer and get the bases following it
std::string cluster_id = get_cluster_id(sequence, seq_to_find, split_level);
+ read_count += 1;
+
+ if (read_count >= total_reads/10 && part_id == 0){
+ read_count = 0;
+ step_count += 1;
+ std::cout << "thread " << part_id << " : " << step_count <<"0%" << std::endl;
+ }
+
if (cluster_id == "None") {
continue; // ignore the read
}
@@ -118,6 +129,7 @@ void process_file_part(const std::string& input_filename, int part_id, int start
return;
}
output_file << ">" << read_name << "\n" << sequence << "\n";
+
}
}
--
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