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Task #4184 (closed)

Opened 9 years ago

Closed 8 years ago

Last modified 8 years ago

Add a few more options to bfconvert

Reported by: mlinkert Owned by: mlinkert
Priority: major Milestone: OMERO-Beta4.3.1
Component: Bio-Formats Version: n.a.
Keywords: n.a. Cc: desai@…
Resources: n.a. Referenced By: n.a.
References: n.a. Remaining Time: 0.0d
Sprint: 2011-07-07 (1)

Description (last modified by mlinkert)

In particular:

  • '-range', similar to showinf's '-range'
  • '-channel', to convert a specific channel
  • '-timepoint', to convert a specific timepoint
  • '-z', to convert a specific Z section
  • one more output file name pattern: "%A", which will be replaced by the acquisition timestamp for the first image in the output file

Change History (35)

comment:1 Changed 9 years ago by jmoore

imported from bio-formats:#640

comment:2 Changed 9 years ago by mlinkert

The '-range' option is now available.

It would also be nice to have '-version' and '-nogroup' (just like in showinf).

comment:3 Changed 9 years ago by mlinkert

It would also be nice to have a '-crop' option, since so many large image formats are now supported.

comment:4 Changed 9 years ago by mlinkert

  • Description modified (diff)
  • Milestone changed from Unscheduled to OMERO-Beta4.3.1
  • Remaining Time set to 0.5

comment:5 Changed 8 years ago by mlinkert

  • Sprint set to 2011-06-30 (1)

comment:6 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [66c0a7a68007ee9809825472628f01b45a4addfb/bioformats.git]) Add "%A" pattern for placing timestamps in the filename.

See #4184.

comment:7 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [861cf07d0485d26b968783880937b879ac66d778/bioformats.git]) Add '-version' option to bfconvert.

See #4184.

comment:8 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [b8884c5c89ece618196b23255c80d7b5db0a9086/bioformats.git]) Add '-nogroup' option to bfconvert.

See #4184.

comment:9 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [4b365f90b0e0bf3c198efaa923f94bd24ccec2b9/bioformats.git]) Add options for converting a single Z section, channel, or timepoint.

See #4184.

comment:10 Changed 8 years ago by Melissa Linkert <melissa@…>

  • Remaining Time changed from 0.5 to 0
  • Resolution set to fixed
  • Status changed from new to closed

(In [96d234e09c6d8db0a375c45b4b4fff72ffa6555b/bioformats.git]) Add '-crop' option to bfconvert.

Also, fixed up the documentation to mention the new options. Closes #4184.

comment:11 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [66c0a7a68007ee9809825472628f01b45a4addfb/bioformats.git]) Add "%A" pattern for placing timestamps in the filename.

See #4184.

comment:12 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [861cf07d0485d26b968783880937b879ac66d778/bioformats.git]) Add '-version' option to bfconvert.

See #4184.

comment:13 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [b8884c5c89ece618196b23255c80d7b5db0a9086/bioformats.git]) Add '-nogroup' option to bfconvert.

See #4184.

comment:14 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [4b365f90b0e0bf3c198efaa923f94bd24ccec2b9/bioformats.git]) Add options for converting a single Z section, channel, or timepoint.

See #4184.

comment:15 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [96d234e09c6d8db0a375c45b4b4fff72ffa6555b/bioformats.git]) Add '-crop' option to bfconvert.

Also, fixed up the documentation to mention the new options. Closes #4184.

comment:16 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [f53785aab8ccdc296dd6e3ab907ff092f4aa06d9/bioformats.git]) Add "%A" pattern for placing timestamps in the filename.

See #4184.
(cherry picked from commit 66c0a7a68007ee9809825472628f01b45a4addfb)

comment:17 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [3dc954b449c5938609f777971b297bf06f21f52f/bioformats.git]) Add '-version' option to bfconvert.

See #4184.
(cherry picked from commit 861cf07d0485d26b968783880937b879ac66d778)

comment:18 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [c25712abc9fd21e01a36a49326e6ac563d4ebb9c/bioformats.git]) Add '-nogroup' option to bfconvert.

See #4184.
(cherry picked from commit b8884c5c89ece618196b23255c80d7b5db0a9086)

comment:19 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [5e42b952d58d21a17245d448e4251b880c5d5739/bioformats.git]) Add options for converting a single Z section, channel, or timepoint.

See #4184.
(cherry picked from commit 4b365f90b0e0bf3c198efaa923f94bd24ccec2b9)

comment:20 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [94cdb82ce0e14fc921e932f26b22290417993876/bioformats.git]) Add '-crop' option to bfconvert.

Also, fixed up the documentation to mention the new options. Closes #4184.
(cherry picked from commit 96d234e09c6d8db0a375c45b4b4fff72ffa6555b)

comment:21 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [f53785aab8ccdc296dd6e3ab907ff092f4aa06d9/bioformats.git]) Add "%A" pattern for placing timestamps in the filename.

See #4184.
(cherry picked from commit 66c0a7a68007ee9809825472628f01b45a4addfb)

comment:22 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [3dc954b449c5938609f777971b297bf06f21f52f/bioformats.git]) Add '-version' option to bfconvert.

See #4184.
(cherry picked from commit 861cf07d0485d26b968783880937b879ac66d778)

comment:23 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [c25712abc9fd21e01a36a49326e6ac563d4ebb9c/bioformats.git]) Add '-nogroup' option to bfconvert.

See #4184.
(cherry picked from commit b8884c5c89ece618196b23255c80d7b5db0a9086)

comment:24 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [5e42b952d58d21a17245d448e4251b880c5d5739/bioformats.git]) Add options for converting a single Z section, channel, or timepoint.

See #4184.
(cherry picked from commit 4b365f90b0e0bf3c198efaa923f94bd24ccec2b9)

comment:25 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [94cdb82ce0e14fc921e932f26b22290417993876/bioformats.git]) Add '-crop' option to bfconvert.

Also, fixed up the documentation to mention the new options. Closes #4184.
(cherry picked from commit 96d234e09c6d8db0a375c45b4b4fff72ffa6555b)

comment:26 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [66c0a7a68007ee9809825472628f01b45a4addfb/bioformats.git]) Add "%A" pattern for placing timestamps in the filename.

See #4184.

comment:27 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [861cf07d0485d26b968783880937b879ac66d778/bioformats.git]) Add '-version' option to bfconvert.

See #4184.

comment:28 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [b8884c5c89ece618196b23255c80d7b5db0a9086/bioformats.git]) Add '-nogroup' option to bfconvert.

See #4184.

comment:29 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [4b365f90b0e0bf3c198efaa923f94bd24ccec2b9/bioformats.git]) Add options for converting a single Z section, channel, or timepoint.

See #4184.

comment:30 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [96d234e09c6d8db0a375c45b4b4fff72ffa6555b/bioformats.git]) Add '-crop' option to bfconvert.

Also, fixed up the documentation to mention the new options. Closes #4184.

comment:31 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [66c0a7a68007ee9809825472628f01b45a4addfb/bioformats.git]) Add "%A" pattern for placing timestamps in the filename.

See #4184.

comment:32 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [861cf07d0485d26b968783880937b879ac66d778/bioformats.git]) Add '-version' option to bfconvert.

See #4184.

comment:33 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [b8884c5c89ece618196b23255c80d7b5db0a9086/bioformats.git]) Add '-nogroup' option to bfconvert.

See #4184.

comment:34 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [4b365f90b0e0bf3c198efaa923f94bd24ccec2b9/bioformats.git]) Add options for converting a single Z section, channel, or timepoint.

See #4184.

comment:35 Changed 8 years ago by Melissa Linkert <melissa@…>

(In [96d234e09c6d8db0a375c45b4b4fff72ffa6555b/bioformats.git]) Add '-crop' option to bfconvert.

Also, fixed up the documentation to mention the new options. Closes #4184.

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