Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

add assertion to count signal samples and fix wrong insertion at the begnning of ss string #156

Merged
merged 1 commit into from
Feb 27, 2024
Merged

add assertion to count signal samples and fix wrong insertion at the begnning of ss string #156

Changes from all commits
Commits
Show all changes
1 commit
Select commit
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
10 changes: 8 additions & 2 deletions src/resquiggle.c
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -339,6 +339,7 @@ void output_db_rsq(core_t* core, db_t* db, int8_t fmt) {
int8_t ff = 1; //first start flag
int matches = 0;
int8_t rna = core->opt.flag & F5C_RNA;
int64_t count_samples = 0;

if (rna){
for (int j = 0; j < n_kmers/2; ++j) {
Expand Down Expand Up @@ -372,6 +373,7 @@ void output_db_rsq(core_t* core, db_t* db, int8_t fmt) {
if(ff) {
signal_start_point2 = signal_start_point;
read_start = j;
ci = signal_start_point;
ff=0;
}
signal_end_point2=signal_end_point = et.event[end_event_idx].start + (int)et.event[end_event_idx].length; //non-inclusive
Expand All @@ -383,12 +385,16 @@ void output_db_rsq(core_t* core, db_t* db, int8_t fmt) {
}
if(j==0) ci = signal_start_point;
ci += (mi = signal_start_point - ci);
if(mi) sprintf_append(sp,"%dI",(int)mi);
if(mi) {
sprintf_append(sp, "%dI", (int)mi);
count_samples += mi;
}
ci += (mi = signal_end_point-signal_start_point);

if(mi) {
matches++;
sprintf_append(sp,"%d,",(int)mi);
count_samples += mi;
}
}

Expand Down Expand Up @@ -420,7 +426,7 @@ void output_db_rsq(core_t* core, db_t* db, int8_t fmt) {
}

if(fmt==1){

assert(count_samples==(signal_end_point2-signal_start_point2));
assert(n_kmers>0);
str.s[str.l] = '\0';

Expand Down
Loading