Opened 7 years ago
Closed 6 years ago
#610 closed defect (fixed)
mzML error for MALDI files
| Reported by: | Rene Ranzinger | Owned by: | dbrentw |
|---|---|---|---|
| Priority: | high | Milestone: | GRITS - 1.2 |
| Component: | MS data management | Version: | GRITS 1.1.x |
| Severity: | critical | Keywords: | |
| Cc: | dbrentw |
Description
When converting Bruker MALDI files to mzML a file is generated that uses text spectra ids. The mzML reader in GRITS does not support this although it is valid:
...
<spectrum index="0" id="file=_x0031_SRef_x002f_fid" defaultArrayLength="163840">
...
<indexList count="2">
<index name="spectrum">
<offset idRef="file=_x0031_SRef_x002f_fid">3905</offset>
</index>
</indexList>
Change History (7)
comment:1 Changed 7 years ago by
| Owner: | set to dbrentw |
|---|---|
| Status: | new → assigned |
comment:2 Changed 7 years ago by
| Status: | assigned → accepted |
|---|
comment:3 Changed 7 years ago by
| Milestone: | GRITS - 1.1 SR1 → GRITS - 1.1 SR2 |
|---|
comment:4 Changed 6 years ago by
| Resolution: | → fixed |
|---|---|
| Status: | accepted → review |
comment:5 Changed 6 years ago by
| Resolution: | fixed |
|---|---|
| Status: | review → assigned |
When uploading this file it seems to work fine. However there are still NumberFormatExceptions written to the console. If that exceptions should be recorded they should go into the logfile as debugs. They are not really errors since we know what cases them and "fix" that.
comment:6 Changed 6 years ago by
| Resolution: | → fixed |
|---|---|
| Status: | assigned → review |
Update again. I think I've resolved the exceptions problem. SVN revision 2091
comment:7 Changed 6 years ago by
| Status: | review → closed |
|---|
Resolved in SVN revision 1974