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User Story #3215 (accepted)

Opened 10 years ago

Last modified 4 years ago

Import and Attachments

Reported by: jburel Owned by:
Priority: critical Milestone: Metadata
Component: General Keywords: paris2011
Cc: jamoore, wmoore, mlinkert, cxallan, saloynton, rkferguson, rleigh Story Points: n.a.
Sprint: n.a. Importance: n.a.
Total Remaining Time: 1.0d Estimated Remaining Time: n.a.

Description (last modified by jburel)

Images are imported with some attachments, sometimes a large number of them.
e.g. oif files might end up having .lut, .roi, .pyt etc.

  • Improve handling of ROI at import time.
  • possibly create a .zip with the attachments metadata.
  • .zip for measurements, etc.

Follow a list of formats with ROI parsed by B-F:

  • BD-Pathway
  • FV1000
  • IPLab
  • Leica LEI
  • LI-FLIM
  • MIAS
  • ND2
  • Zeiss LSM
  • Zeiss ZVI.

Change History (11)

comment:1 Changed 10 years ago by jburel

  • Description modified (diff)

comment:2 Changed 9 years ago by jmoore

  • Keywords paris2011 added
  • Milestone changed from Unscheduled to OMERO-Beta4.3.2

Adding to 4.3.2 for investigation per Paris 2011 Users' meeting.

comment:3 Changed 9 years ago by jburel

  • Milestone changed from OMERO-Beta4.3.2 to Usability Backlog

comment:4 Changed 9 years ago by jburel

  • Cc saloynton added; bwzloranger removed
  • Milestone changed from Usability Backlog to OMERO-Beta4.4

comment:5 Changed 8 years ago by agilo

  • Status changed from new to accepted

Updated status, related task in progress

comment:6 Changed 8 years ago by jburel

List of files with ROI

bd-pathway/bram/42_6_1_100208_BJWT_LOPAC_05_08_10nM_R1/2010-02-19_000/Experiment.exp
bd-pathway/darren/2009-05-01_000/Experiment.exp
bd-pathway/darren/2009-05-01_001/Experiment.exp
fv1000/kashif/OIF_V1/Sample_XYZ.oif
fv1000/kashif/OIF_V2/Sample_XYZ.oif
iplab/tony/4mtD3cpv_W_1.ipl
iplab/tony/pcam_W_1.ipl
leica-lif/melissa/LIF2_test-with-ROIs.lif
leica-lif/melissa/roi-test-0.lif
leica-lif/melissa/roi-test-1.lif
li-flim/qian/vxl-mbad-737-1um-01687.fli
li-flim/samples/lifetime-extended.fli
li-flim/samples/lifetime-simple.fli
li-flim/samples/reference-extended.fli
li-flim/samples/reference-simple.fli
li-flim/samples/sample-extended.fli
li-flim/samples/sample-simple.fli
li-flim/jean-marie/Flimdata/C Reference fluorescein4ns-CFPbpFILTER.fli
li-flim/jean-marie/Flimdata/C Sample CFP-and-CFPYFP-cells-CFPbpFILTER-slow timelapse.fli
li-flim/jean-marie/Flimdata/D Reference fluorescein4ns-CFPbpFILTER-multifreq.fli
li-flim/jean-marie/Flimdata/D Sample CFPYFP-cells-CFPbpFILTER-multifreq.fli
li-flim/jean-marie/Flimdata/lif_C Sample CFP-and-CFPYFP-cells-CFPbpFILTER-slow timelapse.fli
li-flim/jean-marie/Flimdata/lif_D Sample CFPYFP-cells-CFPbpFILTER-multifreq.fli
mias/frans/MIAS 3 D set 2 july 13 2009/
mias/frans/MIAS 3D set 3 july 13 2009/
mias/frans/NEO-Exp13072008-long-protokol/
mias/frans/One MNU Plate/
mias/frans/One Plate/
mias/frans/siRNA_PRIM1_03102008/
zeiss-czi/zeiss/samples/FluoCells_DCV-Teststack.czi
zeiss-czi/zeiss/dvds/lsm-disk1/CZI-Example Data LSM/3D/Calcium_4D_002.czi
zeiss-czi/zeiss/dvds/lsm-disk1/CZI-Example Data LSM/3D/Zstack_003.czi
zeiss-czi/zeiss/dvds/lsm-disk1/CZI-Example Data LSM/Bleach/bleach.czi
zeiss-czi/zeiss/dvds/lsm-disk1/CZI-Example Data LSM/Bleach/bleach16bit.czi
zeiss-czi/zeiss/dvds/wf-disk1/CZI Test WF/CZI-Example Data WF/Annotation/2C_7Z-01_Tinting_Annotationen_MeasFeatures.czi
zeiss-czi/zeiss/dvds/wf-disk1/CZI Test WF/CZI-Example Data WF/Annotation/2C_7Z-01_Tinting_Annotationen_MeasFeatures_V03.czi
zeiss-czi/zeiss/dvds/wf-disk1/CZI Test WF/CZI-Example Data WF/Annotation/2C_7Z-01_Tinting_Annotationen_MeasFeatures_V03_ohneFocusPos.czi
zeiss-czi/zeiss/dvds/wf-disk1/CZI Test WF/CZI-Example Data WF/Annotation/2C_7Z-04_Annotationen.czi
zeiss-czi/zeiss/dvds/wf-disk1/CZI Test WF/CZI-Example Data WF/Annotation/2C_7Z-04_Tinting_Annotations.czi
zeiss-czi/zeiss/dvds/wf-disk1/CZI Test WF/CZI-Example Data WF/Annotation/Annotation_Measurment_V01.czi
zeiss-czi/zeiss/dvds/wf-disk1/CZI Test WF/CZI-Example Data WF/Unspecified/Longterm-Timelapse_Buters.czi
zeiss-lsm/melissa/lsm-with-overlays.lsm
zeiss-zvi/converted/WTZER_Series76_z003_ch00-with-ROIs.zvi

comment:7 Changed 8 years ago by jburel

  • Cc rkferguson added

Scott, Gus we should start looking at those files as soon as possible to see if rois are imported.

comment:8 Changed 8 years ago by jburel

  • Cc rleigh added

comment:9 Changed 8 years ago by jburel

  • Milestone changed from OMERO-Beta4.4 to OMERO-Beta4.5

comment:10 Changed 7 years ago by jamoore

  • Milestone changed from OMERO-5 to OMERO-4.4.8

Moving to 4.4.8 for evaluation for the next stable release since this doesn't seem specifically FS related. If this should be moved to "Unscheduled" along with #5936, feel free.

comment:11 Changed 4 years ago by jamoore

  • Milestone changed from 5.x to Metadata
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