github.com/ome/ome-model commits | Ecosyste.ms: OpenCollective

Merge pull request #1662 from rleigh-dundee/cpp-libexec

C++: Documentation, usability and tool consistency fixes

9154a6ae6a068080d641dbce12cd515925306f23 authored almost 10 years ago

Add parseFile method.

7bdb0ea428eb877243ae1130bae0a4748ba4ec26 authored almost 10 years ago

Fix possible IO exception.

Passing a file can lead to an IOException
a FileInputStream should be specified.

82d1bcc8f35a2ec56dc237b435069c0c15db623a authored almost 10 years ago

Keep original roi Id if it exists.

d64b3dd4b8e996f6c967c5ea72d632105bc4a98f authored almost 10 years ago

Fix formatting of ROI and shape id.

c9aa70e5a344cac434bc6f60bb02a2390b7df76c authored almost 10 years ago

Merge pull request #1 from qidane/beam-roi-fix

Fix for microbeam ROIs

195baee68602ac41a89d1a8d0bf5cc3b294d2ca0 authored almost 10 years ago

Change to xslt version 1.0

13da94c68e35e094a6d4fc89f7c2e5a57b5fb88a authored almost 10 years ago

Add case to convert ROI for microbeam manipulation

a9232e3fc10bcda034bc808d62f21f8da95c55df authored almost 10 years ago

Annotate acquisition entities.

93352958bb2aea485b0b31309fb71df0dec2ad89 authored almost 10 years ago

cpp: test: Correct ome-compat module root environment

a914e586a34f608cac510daca842cd3ff0314994 authored almost 10 years ago

cpp: Rename bf wrapper and docs to bf-test

0fdb3a013834213a07cfef478a6b53255f4c11c4 authored almost 10 years ago

cpp: bioformats: Add invalid file mapping to OMETIFFReader

Use to only warn on the first occurence of an invalid file; could be used
to override filename m...

87c19bb16cc66f9ec0f418c7772802eb7fb7ea4a authored almost 10 years ago

cpp: bioformats: OMETIFFReader::initFile always uses canonicalised path for id

This was originally copying the Java logic which uses both in different
contexts, but this could...

497676b5f96751c2fbaf54377b3b50c389c76839 authored almost 10 years ago

cpp: bioformats: Correct OMETIFFReader handling of nonexistend UUID filename

Canonicalising the path will throw an exception if invalid; fall back to currentId.

2fe1576735a0b541ebb7f084fd420f576d29c977 authored almost 10 years ago

cpp: bioformats: Correct OMETIFFReader logger initialisation ordering

4aaf408a0f40118548fb3632df5513e077417f99 authored almost 10 years ago

Fix ref sequence in Experiment

ecbd8a7332a9b874fb822727594307318f11111b authored almost 10 years ago

Correcting the definition of NonNegativeFloat

c47694d576258f4d954fdeccfe6dea791ccc043b authored almost 10 years ago

Correct the 2008-02 catalog

9833f5d5f1c3d1f07873091f758e472599628474 authored almost 10 years ago

Apply-template experimenter ref. Wrongly removed.

7e235b1b9b660cd714b61edcfa90e2478125dc22 authored almost 10 years ago

Link microbeam to image.

87fd272a5031deb2e4a25c5cb97d3bf394bfca27 authored almost 10 years ago

Add missing ExperimenterRef

37f32e28c6afc43e70797a42b4f195c80e20ff7a authored almost 10 years ago

Preserve plane if presents.

b32fbebca978b5eca92f889ff9f53631af5736f9 authored almost 10 years ago

Remove comment so experiment is transformed.

Still an issue with microbeammanipulation.

e39154eab1c8d0af3a18d29eb313a000af1337f2 authored almost 10 years ago

Keep rounded nominal magnification

This value is required by older schema. Not keeping the value
prevent us from go back to older s...

490cbd47a9c4ba17ca06ee0d52996343139c15a7 authored almost 10 years ago

Handle Display Name.

b360cd93d558a72be56a92d9f1099fd3a5ec63dd authored almost 10 years ago

Comment out Experiment transform for now.

2df9013085aebf57f754cc3d6bf6f939aacd5080 authored almost 10 years ago

Handle cutIn/out Tolerance.

933e69802ac7aa4b9660cf84897c202212867c7e authored almost 10 years ago

Handle workingdistance

49c824b578795ca7bd8b85ce74cf3bae330674e2 authored almost 10 years ago

Handle RepetitionRate on Laser.

da1a8db9cf94bf49a29bc83abd5dc1d3263474a3 authored almost 10 years ago

Remove powerunit from LightSource

cc57414acf9d3ebdd8906fea221e425d58f18eaa authored almost 10 years ago

Clean up set-up

0db1de1853f27c3b0aeae827473ed855da961c28 authored almost 10 years ago

Remove omero import

60456c201e95e0479365e9a2e3a93ddff191f755 authored almost 10 years ago

Add missing physical size for pixels.

03635cac0177d8a003d6a5b370bd63eac646445c authored almost 10 years ago

Handle CutIn/CutOut

8d901ec317540f5ccbf89103308849eacb30539c authored almost 10 years ago

Convert and remove voltage unit.

0770521110b91aca94540fad7d6b6ffa72882e1c authored almost 10 years ago

format

5c31831e221cc5ee5a9d4e19c4ba59c7d5097cd1 authored almost 10 years ago

Fix ID of logical channel.

6806d116ba0b07fa841004b3b2159c1dcecf594a authored almost 10 years ago

Fix typo.

7ad82e1a1cbd2a62040482ade88569662a85714e authored almost 10 years ago

Strip out xslt:fix

74ba58b625f0ddf98de2fb615269bab0a94f864f authored almost 10 years ago

Replace name by local-name.

264e80c259afb967097c72bfb7db579381290157 authored almost 10 years ago

Remove unsupported length attribute.

eafb7925aa5c543e5dd8ca927eb5e1c6af4a4f0a authored almost 10 years ago

Add template to handle metadataOnly tag.

cc5b56a365f0a70395a7f3280140493a6badc155 authored almost 10 years ago

Replace name by local-name

ecd348d2960c7aa3f28d73b5552f15ba417ec414 authored almost 10 years ago

Update POM version numbers to 5.1.0-rc1

34c31cbc6acaea1b14971872d3dab81e6e44c803 authored almost 10 years ago

Handle pinhole size.

c00051eb1e2fdf8db5f3d9b693913c2be178ccae authored almost 10 years ago

docs: Document C++ environment

31d19a8f8d664fa3597419e49f19349a8fc40182 authored almost 10 years ago

Merge pull request #1654 from hflynn/url-fixes

Update OME-XML URLs

9ef257e793bec4c0294253ce3943f00130ac6332 authored almost 10 years ago

Correct downgrade transform for map & units

Now handles empty maps in imaging environment and wavelength units.

f1f802b5c4bebeeff3344fc903802637585ddf8c authored almost 10 years ago

cpp: bf: Improve error message

cfa0d826331f376bf0d89c27b9cb2516bfa49ba9 authored almost 10 years ago

build: Use long and short git revisions

02c35ebab2f60d6263678424daff18bc422c1478 authored almost 10 years ago

cpp: bf: Correct error message

fb070eb0384362644854d69d44d5b63cf8a90ca8 authored almost 10 years ago

cpp: Update copyrights for cmake shell wrapper

dd72513882747d83ec19ab136a46247f9d50afc6 authored almost 10 years ago

cpp: test: Add and update ome-common tests

99540356b534c1c9ea421dc843d744ecfe97b4dc authored almost 10 years ago

cpp: libexec: Rename glview to view and showinf to info

This makes the commands match the documentation and top-level
wrapper. They are still invocable...

3c4f3508e4740f3d4db64c2c3e91b4204c65c851 authored almost 10 years ago

docs: Add manual pages for bf and glview

ad23e0d6f98158c481c14e08febb3cbfbf77f26d authored almost 10 years ago

cpp: Add bf command and display manpages with --help

8ddaa91c53ad3eebd0997cf77ad831fde634f782 authored almost 10 years ago

cpp: Move programs to libexec to avoid path clashes

515ba36bb03ef50575de9ee590d0e5ebd37c51e4 authored almost 10 years ago

travis: Fix merge conflict

a7250bf349d20c56ae59b7ee944aaae148e85901 authored almost 10 years ago

Impose Sphinx 1.2.3 for Travis build

Sphinx 1.3.0 has been released on March 10 and is installed by default.
However our code current...

5c4ca6b8a98a634a55eeb939e03a9c94b9a6012b authored almost 10 years ago

ome: compat: Split out non-stdlib compatibility code into ome::common

b28fc788e9f881f35057d90c1335845e2fb03855 authored almost 10 years ago

Merge pull request #1653 from sbesson/flake8_nocap

Flake8 2.4.0 imposes cap on PEP8

91563b514a1df0adb16ebc63d067c4f3c50c8bbe authored almost 10 years ago

Update OME-XML URLs

The ome-xml.org domain is retired in favor of openmicroscopy.org.
So let's use the current URLs ...

5727809f82f21a848822c6b60cb5036a9712d1cd authored almost 10 years ago

Flake8 2.4.0 imposes cap on PEP8

86bebf48a06754669abda68d5e1b6de98cb410ba authored almost 10 years ago

cpp: bioformats: Implement model version checking in MetadataTools

e8e0dac521134f1f4fedf0b5bd90ace8360be69c authored almost 10 years ago

cpp: test: Factor out whole file reading into readFile helper

c32a51640c554e87305b3bbc89cf4ba03814f01d authored almost 10 years ago

Fixes from C++ branch

cc63d373fa0a7c752db7cebd5689718a962c8e06 authored almost 10 years ago

Merge pull request #1637 from melissalinkert/cellh5

Add CellH5 support

5dc9c9fbd081141cc472906f5f175f3513d81030 authored almost 10 years ago

Merge pull request #1644 from qidane/oxygen-exclude

Add exclude for oxygen files

b805dba1f27f22a90fe838afa180417c18f25efe authored almost 10 years ago

Merge pull request #1639 from rleigh-dundee/cpp-array

cpp: compat: Move std::array into the compat namespace

2c5f3baa1df0d62f221c00cf6271049dbff12e93 authored almost 10 years ago

Ignore oxygen project files

5a9bde5bcf575082242de6993f8a4fdb5cb1fa92 authored almost 10 years ago

Add exclude for oxygen files

4355c0c1744a5371e2419f9ceec08a82861b56eb authored almost 10 years ago

cpp: compat: Update cstdint file comment

3419b61a646b40038b379fbeda4e5c047282984c authored almost 10 years ago

cpp: compat: Add boost cstdint fallback

7b35088cba049ec6b62be4d7881c4a04d6036f37 authored almost 10 years ago

cpp: compat: Move std::array into the compat namespace

This matches the move of shared_ptr, regex etc.

cbbed387f535adfbb44e7182c9faf6af48520a93 authored almost 10 years ago

Merge pull request #1635 from rleigh-dundee/cpp-man2

C++: Add showinf manual page and update showinf options

9cec82271f2012a682b94f77819772d2bfa69d52 authored almost 10 years ago

cmake: Don't use old-style compile definitions

3b934b66303840763ddd4109b8a7b60167c57714 authored almost 10 years ago

cpp: test: Use portable ome-xml stream assertions

8e8fbce858dd9430ac7f0480ce3229423fac8432 authored almost 10 years ago

cmake: CompilerChecks: Correct and tidy conditionals for cmake 3.1

45b7c6a129c9bfdfad60e71d2004471c9c3d483b authored almost 10 years ago

cpp: Disable compiler autodetection by default in CompilerChecks

This will be more likely to interoperate with system libraries.

fb5502fee20c08204191f78a780217e62906c71b authored almost 10 years ago

cmake: Enable C++14 autodetection in CompilerChecks

Since writing the macro, current compilers also implement newer
C++14 compatibility modes. Add ...

295544cac684b7f7908c8019365d7341f412f3b3 authored almost 10 years ago

xsd-fu: C++ model enum template: Handle invalid case insensitive iterator

1900459178a5cb803335238f22f2e95cbd74ef06 authored almost 10 years ago

cpp: test: Update ome model enum stream operator tests

6883a264b0379f613ddb542d69c1791ebc082cdc authored almost 10 years ago

cmake: Add Sphinx manual page generation

1b952568caaadba7ff098e11a57b1bbe2bc3c43f authored almost 10 years ago

cpp: ome-xml: Add istream operator for enums

f76033f7eaee38c7207607f2aab591154e08f735 authored almost 10 years ago

cpp: showinf: Update command-line options and documentation

30e4394e24716cd721b39c0b65a5a3407381edac authored almost 10 years ago

added binary attribute for h5 files

Conflicts:

.gitattributes

4c0cf10567fe06b568a94230eb957fa38a10ba9d authored almost 10 years ago

Changing description of NDFilter to match usage.

7eed01aabe0a0f802c4d129501abca3a4007f988 authored almost 10 years ago

Reverse source/target conversion

fd45efc16cb6dc1b2d094687210ed5fbeb18ab43 authored almost 10 years ago

Merge pull request #1614 from rleigh-dundee/cpp-log

cpp: Add basic logging support

7c6041c869e770d63da9c87c06bdd40feedc3a48 authored almost 10 years ago

Merge pull request #1626 from rleigh-dundee/cpp-viewer

C++: Add simple plane viewer

ad0f9c3064e9e0d19597240f9914561aead54acf authored almost 10 years ago

cpp: glview: Add Min and Max labels to Rendering dock widget

fd92208be3ef8a65b0c69cd57729988e4e77e2c1 authored almost 10 years ago

cpp: qtwidgets: Use compat version of std::array

1bf2821816ddbd968b99488f57b32c6cbb5fba0f authored almost 10 years ago

cpp: qtwidgets: Remove abiguity calling std::pow

The code is fine, but upsets the MacOSX 10.8 compiler/stdlib.

fd3199a140ea021db7e4cba9f315c46fe9b4a4de authored almost 10 years ago

Adding bar to units

6846891be01f35b55f4cd0f8fe6dc5ccff209d59 authored almost 10 years ago

cpp: ome-xml: Remove last instances of static loggers (2)

58fae9b9a38adcb53f7cd3759390bffd3e6be73b authored almost 10 years ago

cpp: qtwidgets: Run qtwidgets tests in correct environment

d2c27814ef286f962eeca503ee4805dca30808c9 authored almost 10 years ago

cpp: ome-xml: Remove last instances of static loggers

b143e63975fe077a698f7df03bdbee54d418cd9a authored almost 10 years ago

xsd-fu: Add missing comment to C++ OMEXMLModelObject.template

de6652e6ea953a7992276ffac96471dfd8c883e7 authored almost 10 years ago

cmake: Use new variable expansion policy

c0bbd17e222d3653b272e22db0b7011b30abf6ce authored almost 10 years ago

cpp: qtwidgets: Don't hide parent render methods in GLView2D

5adc258ff42fac84de4e8f20623153b3ed0b2326 authored almost 10 years ago