python omero.gateway better support for SPW

[cneves]

omeroweb.webclient has much of the SPW logic implemented directly on the django controller classes, but this functionality is needed outside of that.

This story tracks the effort to move that logic into omero.gateway, making it somewhat more consistent with the object model used there.

[Carlos Neves <carlos@…>]

(In [0677bf1d8e4e6392ed46108cf87c245368db26fd/ome.git] on branch dev_4_1_custom) python omero.gateway Playing nicer with SPW (see #4649)

PlateWrapper?.listChildren() fetches wells
WellWrapper?.listChildren() fetches wellsamples
PlateWrapper? new shortcut methods:

• getGridSize(): calculates the plate row and column count
• getWellGrid(): returns the child wells as an array of [row][column] WellWrapper?
• getNumberOfFields: iterates all wells and returns highest count of wellsamples

WellWrapper? new shortcut methods:

• getWellSample (index=None): get wellsample at index, or default if none given
• getImage (index=None): getWellSample(index).getImage()

[Carlos Neves <carlos@…>]

(In [6f02e2e1c641c88671fec6166b24c90533e57e66/ome.git] on branch dev_4_1_custom) Adding basic plate grid view javascript that uses new plateGrid_json view for data (see #4649)

[Carlos Neves <carlos@…>]

(In [d6d8490f4685a39f72299c881bf3f09fa4df8eba/ome.git] on branch dev_4_1_custom) Adding call to list plate column and row labels (see #4649).

Also adding support to refresh the known wrappers dictionary, to be called after extending classes change the omero.gateway wrapper classes.

[Carlos Neves <carlos@…>]

(In [ccc9de7d9bc160f081a7dcd40cf1eb679d793651/ome.git] on branch dev_4_1_custom) Allow for setting grid size constraints on the plate wrapper (see #4649).

The way the constraint works is by calling setGridSizeConstraints(rows, cols), where rows and cols are the minimum plate size, and empty wells will be returned in getWellGrid to pad as needed. Also the getGridSize call will return the constraint value.
If the number of rows or cols is larger than the constraint, the latter is doubled sequentially until a larger or equal size is found.
For example, a 96 well plate will be 8x12, if we have a plate with 9x12 the next size will be (8x2)x(12*2) <=> 16x24 == 384 wells. Next up is 32x48 == 1536 wells and so on.

[Carlos Neves <carlos@…>]

(In [e6f4bf13038337aa8c8993eb422b7c66690bda58/ome.git] on branch dev_4_1_custom) Prettier loading of well grids on the weblitz-plateview.js plugin and the json call now sets grid constraints to 8,12 (see #4649)

[Carlos Neves <carlos@…>]

(In [2080ca02f49cf093408365a5fa7358fa4f861892/ome.git] on branch dev_4_1_custom) weblitz-plateviewer now allows specifying plate field (see #4649)

[Carlos Neves <carlos@…>]

(In [72a7372b7d1b5c9fc5443968d56708c0f6a2ec38/ome.git] on branch dev_4_1_custom) Adding gateway.getWell and implementing loadedHotSwap for WellWrapper? (see #4649)

[Carlos Neves <carlos@…>]

(In [bd0af69157b09c13802db04874120292e4c3ee32/ome.git] on branch dev_4_1_custom) webgateway improve well support (see #4649)

[cxallan]

Closing in favour of #6416.

[Carlos Neves <carlos@…>]

(In [697ea359b4058edf60c65a103fbb825b83a92199/ome.git]on branches develop, develop-spwmerge) python omero.gateway Playing nicer with SPW (see #4649)

PlateWrapper?.listChildren() fetches wells
WellWrapper?.listChildren() fetches wellsamples
PlateWrapper? new shortcut methods:

• getGridSize(): calculates the plate row and column count
• getWellGrid(): returns the child wells as an array of [row][column] WellWrapper?
• getNumberOfFields: iterates all wells and returns highest count of wellsamples

WellWrapper? new shortcut methods:

• getWellSample (index=None): get wellsample at index, or default if none given
• getImage (index=None): getWellSample(index).getImage()

Conflicts:

components/tools/OmeroPy/src/omero/gateway/init.py

[Carlos Neves <carlos@…>]

(In [4eabe6a6ec69d647772df2b6a3ab30ec3ff46c15/ome.git]on branches develop, develop-spwmerge) Adding call to list plate column and row labels (see #4649).

Also adding support to refresh the known wrappers dictionary, to be called after extending classes change the omero.gateway wrapper classes.

Conflicts:

components/tools/OmeroPy/src/omero/gateway/init.py

[Carlos Neves <carlos@…>]

(In [e3df663671069cd40985ff82b32b0ee3a70b7fdf/ome.git]on branches develop, develop-spwmerge) Allow for setting grid size constraints on the plate wrapper (see #4649).

The way the constraint works is by calling setGridSizeConstraints(rows, cols), where rows and cols are the minimum plate size, and empty wells will be returned in getWellGrid to pad as needed. Also the getGridSize call will return the constraint value.
If the number of rows or cols is larger than the constraint, the latter is doubled sequentially until a larger or equal size is found.
For example, a 96 well plate will be 8x12, if we have a plate with 9x12 the next size will be (8x2)x(12*2) <=> 16x24 == 384 wells. Next up is 32x48 == 1536 wells and so on.

Conflicts:

components/tools/OmeroPy/src/omero/gateway/init.py

[Chris Allan <callan@…>]

(In [12e851f602984e797225310c8ac434c47033eea2/ome.git] on branch develop) Adding gateway.getWell and implementing loadedHotSwap for WellWrapper? (see #4649)

Conflicts:

components/tools/OmeroPy/src/omero/gateway/init.py

[Chris Allan <callan@…>]

(In [1a6393e1aaac5d963c89390e282ade376ee16fe9/ome.git] on branch develop) Adding basic plate grid view javascript that uses new plateGrid_json view for data (see #4649)

[Chris Allan <callan@…>]

(In [1e264f10508ec7d47c41e43e076b2f5b798df1fd/ome.git] on branch develop) Prettier loading of well grids on the weblitz-plateview.js plugin and the json call now sets grid constraints to 8,12 (see #4649)

[Chris Allan <callan@…>]

(In [0f4c28ca1aa471829acfaa9aaa79acc200bf7932/ome.git] on branch develop) weblitz-plateviewer now allows specifying plate field (see #4649)

[Chris Allan <callan@…>]

(In [f088f4575291fc9cfed7144878f9d7dee8c5e4d8/ome.git] on branch develop) webgateway improve well support (see #4649)