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Task #5560 (closed)

Opened 13 years ago

Closed 13 years ago

BUG: stk/test_setup.init import failed

Reported by: atarkowska Owned by: jburel
Priority: major Milestone: OMERO-Beta4.3
Component: Import Version: n.a.
Keywords: n.a. Cc: mlinkert
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: 0.0d
Sprint: 2011-06-16 (14)

Description

This file should be excluded from the import list or skipped due to UnknownFormatException?

Change History (9)

comment:1 Changed 13 years ago by jburel

Did you select a folder?
If this is the case, we will need to check the import candidates.

comment:2 Changed 13 years ago by jburel

Import candidates returned the correct value.

comment:3 Changed 13 years ago by jburel

We used the "File filters" returned by B-F, when the All supported File formats is selected, all files are available for import.

comment:4 Changed 13 years ago by jburel

  • Cc mlinkert-x jburel added
  • Owner jburel deleted

Insight uses the list of file formats supported returned by B-F. Do we want to exclude such extension from B-F

comment:5 Changed 13 years ago by jmoore

  • Owner set to atarkowska

Ola, where did you see the behavior you're mentioning? From the command-line:

jmoore@necromancer ~/git/dist $ bin/omero import -f /ome/data_repo/test_images_good/stk/
2011-05-31 12:49:48,090 0          [      main] INFO          ome.formats.importer.ImportConfig  - OMERO Version: 4.3.0-DEV
2011-05-31 12:49:48,095 5          [      main] INFO          ome.formats.importer.ImportConfig  - Bioformats version: 4.3-DEV revision: 09c1d51 date: 26 May 2011
2011-05-31 12:49:48,115 25         [      main] INFO   formats.importer.cli.CommandLineImporter  - Log levels -- Bio-Formats: ERROR OMERO.importer: INFO
2011-05-31 12:49:48,643 553        [      main] INFO      ome.formats.importer.ImportCandidates  - Depth: 4 Metadata Level: MINIMUM
2011-05-31 12:49:50,250 2160       [      main] INFO      ome.formats.importer.ImportCandidates  - 10 file(s) parsed into 4 group(s) with 5 call(s) to setId in 1592ms. (1607ms total) [1 unknowns]
#======================================
# Group: /ome/data_repo/test_images_good/stk/PA-SDS-RFP-CenB_w1GFP_t1.stk SPW: false Reader: Metamorph STK
/ome/data_repo/test_images_good/stk/PA-SDS-RFP-CenB_w1GFP_t1.stk
#======================================
# Group: /ome/data_repo/test_images_good/stk/EXPERIMENT38_w1FITC_t1.stk SPW: false Reader: Metamorph STK
/ome/data_repo/test_images_good/stk/EXPERIMENT38_w1FITC_t1.stk
#======================================
# Group: /ome/data_repo/test_images_good/stk/654Atemp.stk SPW: false Reader: Metamorph STK
/ome/data_repo/test_images_good/stk/654Atemp.stk
#======================================
# Group: /ome/data_repo/test_images_good/stk/23srp5dksub.stk SPW: false Reader: Metamorph STK
/ome/data_repo/test_images_good/stk/23srp5dksub.stk
jmoore@necromancer ~/git/dist $ bin/omero import -f /ome/data_repo/test_images_good/stk/test_setup.ini 
2011-05-31 12:49:59,043 0          [      main] INFO          ome.formats.importer.ImportConfig  - OMERO Version: 4.3.0-DEV
2011-05-31 12:49:59,048 5          [      main] INFO          ome.formats.importer.ImportConfig  - Bioformats version: 4.3-DEV revision: 09c1d51 date: 26 May 2011
2011-05-31 12:49:59,055 12         [      main] INFO   formats.importer.cli.CommandLineImporter  - Log levels -- Bio-Formats: ERROR OMERO.importer: INFO
2011-05-31 12:49:59,407 364        [      main] INFO      ome.formats.importer.ImportCandidates  - Depth: 4 Metadata Level: MINIMUM
2011-05-31 12:49:59,474 431        [      main] INFO      ome.formats.importer.ImportCandidates  - 1 file(s) parsed into 0 group(s) with 1 call(s) to setId in 64ms. (67ms total) [1 unknowns]
jmoore@necromancer ~/git/dist $

comment:6 Changed 13 years ago by jburel

  • Sprint changed from 2011-06-02 (13) to 2011-06-16 (14)

Moved from sprint 2011-06-02 (13)

comment:7 Changed 13 years ago by jmoore

  • Cc jburel removed
  • Owner changed from atarkowska to jburel
  • Remaining Time set to 0.1

comment:8 Changed 13 years ago by jburel

  • Status changed from new to accepted

comment:9 Changed 13 years ago by jburel <j.burel@…>

  • Remaining Time changed from 0.1 to 0
  • Resolution set to fixed
  • Status changed from accepted to closed

(In [5bac0fdf7f0916a5e97334173374f15e863ab41c/ome.git] on branch develop) Use import candidates when a .ini file is selected (close #5560)

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