From 69daadfb64830b29bbfd9a20c1bb1c9bccad62bd Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 12:42:48 +0200 Subject: [PATCH 01/23] Create application_vnd.ilastik.project+hdf5.jsonld --- .../application_vnd.ilastik.project+hdf5.jsonld | 13 +++++++++++++ 1 file changed, 13 insertions(+) create mode 100644 instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld diff --git a/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld b/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld new file mode 100644 index 00000000..87e3c1d2 --- /dev/null +++ b/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld @@ -0,0 +1,13 @@ +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/application_vnd.ilastik.project+hdf5", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "fileExtension": [ + ".ilp" + ], + "name": "application/vnd.ilastik.project+hdf5", + "relatedMediaType": null, + "synonym": null +} From 8493631d5ed9ee0057e0eea5c499669b55414aad Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 12:54:51 +0200 Subject: [PATCH 02/23] Update application_vnd.ilastik.project+hdf5.jsonld --- .../application_vnd.ilastik.project+hdf5.jsonld | 10 ++++++++-- 1 file changed, 8 insertions(+), 2 deletions(-) diff --git a/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld b/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld index 87e3c1d2..17948467 100644 --- a/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld +++ b/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld @@ -4,10 +4,16 @@ }, "@id": "https://openminds.ebrains.eu/instances/contentTypes/application_vnd.ilastik.project+hdf5", "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": "The ilastik project file is an hdf5 file with an .ilp extension. It holds the current state of the ilastik application such as what workflow is being used, which images are open and what features to compute on those images.", + "displayLabel": "ilastik project file" "fileExtension": [ ".ilp" ], "name": "application/vnd.ilastik.project+hdf5", - "relatedMediaType": null, - "synonym": null + "relatedMediaType": "application/x-hdf", + "synonym": [ + "ilastik project", + "ilastik project file", + "ILP" + ] } From c3e8da37ef92fdb02b903d8d4d165b5bd5b4b440 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:05:05 +0200 Subject: [PATCH 03/23] Create application_vnd.ilastik.object-features+hdf5.jsonld --- ...ion_vnd.ilastik.object-features+hdf5.jsonld | 18 ++++++++++++++++++ 1 file changed, 18 insertions(+) create mode 100644 instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld diff --git a/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld b/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld new file mode 100644 index 00000000..32c7add0 --- /dev/null +++ b/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld @@ -0,0 +1,18 @@ + +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/application_vnd.ilastik.object-features+hdf5", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": null, + "displayLabel": "ilastik object features HDF5", + "fileExtension": [ + ".hdf5" + ], + "name": "application/vnd.ilastik.object-features+hdf5", + "relatedMediaType": "application/x-hdf", + "synonym": [ + "ilastik object features HDF5" + ] +} From 99bc886d91ab6abca186b3a88478e3ff4323e193 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:05:18 +0200 Subject: [PATCH 04/23] Update application_vnd.ilastik.project+hdf5.jsonld --- .../contentTypes/application_vnd.ilastik.project+hdf5.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld b/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld index 17948467..6126fa6a 100644 --- a/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld +++ b/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld @@ -5,7 +5,7 @@ "@id": "https://openminds.ebrains.eu/instances/contentTypes/application_vnd.ilastik.project+hdf5", "@type": "https://openminds.ebrains.eu/core/ContentType", "description": "The ilastik project file is an hdf5 file with an .ilp extension. It holds the current state of the ilastik application such as what workflow is being used, which images are open and what features to compute on those images.", - "displayLabel": "ilastik project file" + "displayLabel": "ilastik project file", "fileExtension": [ ".ilp" ], From 339f16a342ff465783db6aaf9d7f8349ed6dcd95 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:06:00 +0200 Subject: [PATCH 05/23] Update application_vnd.ilastik.object-features+hdf5.jsonld --- .../application_vnd.ilastik.object-features+hdf5.jsonld | 1 - 1 file changed, 1 deletion(-) diff --git a/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld b/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld index 32c7add0..4a1552a2 100644 --- a/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld +++ b/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld @@ -1,4 +1,3 @@ - { "@context": { "@vocab": "https://openminds.ebrains.eu/vocab/" From 8c68f5ee0600fcb9873786e41d735c7829f81ac8 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:08:38 +0200 Subject: [PATCH 06/23] Create application_vnd.ilastik.object-features+csv.jsonld --- ...ation_vnd.ilastik.object-features+csv.jsonld | 17 +++++++++++++++++ 1 file changed, 17 insertions(+) create mode 100644 instances/data/contentTypes/application_vnd.ilastik.object-features+csv.jsonld diff --git a/instances/data/contentTypes/application_vnd.ilastik.object-features+csv.jsonld b/instances/data/contentTypes/application_vnd.ilastik.object-features+csv.jsonld new file mode 100644 index 00000000..115e1592 --- /dev/null +++ b/instances/data/contentTypes/application_vnd.ilastik.object-features+csv.jsonld @@ -0,0 +1,17 @@ +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/application_vnd.ilastik.object-features+csv", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": "The ilastik object-features CSV file is a table with a line for every detected object and a column for every feature (e.g.: size, position) measured on that object.", + "displayLabel": "ilastik object features CSV", + "fileExtension": [ + ".csv" + ], + "name": "application/vnd.ilastik.object-features+csv", + "relatedMediaType": "text/csv", + "synonym": [ + "ilastik object features CSV" + ] +} From 7712022d5ff05efdf0e873f9030c021bf034f410 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:09:30 +0200 Subject: [PATCH 07/23] Update application_vnd.ilastik.object-features+csv.jsonld --- .../application_vnd.ilastik.object-features+csv.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/data/contentTypes/application_vnd.ilastik.object-features+csv.jsonld b/instances/data/contentTypes/application_vnd.ilastik.object-features+csv.jsonld index 115e1592..a7f90001 100644 --- a/instances/data/contentTypes/application_vnd.ilastik.object-features+csv.jsonld +++ b/instances/data/contentTypes/application_vnd.ilastik.object-features+csv.jsonld @@ -10,7 +10,7 @@ ".csv" ], "name": "application/vnd.ilastik.object-features+csv", - "relatedMediaType": "text/csv", + "relatedMediaType": "https://www.iana.org/assignments/media-types/text/csv", "synonym": [ "ilastik object features CSV" ] From dd9bd6f134236bbd5218919457036055ceb17326 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:11:03 +0200 Subject: [PATCH 08/23] Update application_vnd.ilastik.object-features+hdf5.jsonld --- .../application_vnd.ilastik.object-features+hdf5.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld b/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld index 4a1552a2..5fe37dd0 100644 --- a/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld +++ b/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld @@ -10,7 +10,7 @@ ".hdf5" ], "name": "application/vnd.ilastik.object-features+hdf5", - "relatedMediaType": "application/x-hdf", + "relatedMediaType": null, "synonym": [ "ilastik object features HDF5" ] From 77f59a5aa217368aa6a83a0b2512700002af0f3b Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:11:19 +0200 Subject: [PATCH 09/23] Update application_vnd.ilastik.project+hdf5.jsonld --- .../contentTypes/application_vnd.ilastik.project+hdf5.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld b/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld index 6126fa6a..ab86b3c5 100644 --- a/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld +++ b/instances/data/contentTypes/application_vnd.ilastik.project+hdf5.jsonld @@ -10,7 +10,7 @@ ".ilp" ], "name": "application/vnd.ilastik.project+hdf5", - "relatedMediaType": "application/x-hdf", + "relatedMediaType": null, "synonym": [ "ilastik project", "ilastik project file", From 65fdc430447662e20f40d113dbb984aa3617a882 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:38:21 +0200 Subject: [PATCH 10/23] Create image_vnd.ilastik+hdf5.jsonld --- .../contentTypes/image_vnd.ilastik+hdf5.jsonld | 15 +++++++++++++++ 1 file changed, 15 insertions(+) create mode 100644 instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld diff --git a/instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld b/instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld new file mode 100644 index 00000000..d50a5ac9 --- /dev/null +++ b/instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld @@ -0,0 +1,15 @@ +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_vnd.ilastik+hdf5", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": null, + "displayLabel": "ilastik HDF5 image", + "fileExtension": null, + "name": "image/vnd.ilastik+hdf5", + "relatedMediaType": null, + "synonym": [ + "ilastik HDF5 image" + ] +} From 2d5c455fae6eabd32471bb7aa59abf37074b839a Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:39:38 +0200 Subject: [PATCH 11/23] Update application_vnd.ilastik.object-features+hdf5.jsonld --- .../application_vnd.ilastik.object-features+hdf5.jsonld | 3 ++- 1 file changed, 2 insertions(+), 1 deletion(-) diff --git a/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld b/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld index 5fe37dd0..45fe3650 100644 --- a/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld +++ b/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld @@ -7,7 +7,8 @@ "description": null, "displayLabel": "ilastik object features HDF5", "fileExtension": [ - ".hdf5" + ".hdf5", + ".h5" ], "name": "application/vnd.ilastik.object-features+hdf5", "relatedMediaType": null, From 70de82bb195af1b518341ffbdf3f87bfd5104e42 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:40:05 +0200 Subject: [PATCH 12/23] Update image_vnd.ilastik+hdf5.jsonld --- instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld | 5 ++++- 1 file changed, 4 insertions(+), 1 deletion(-) diff --git a/instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld b/instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld index d50a5ac9..7a0440e5 100644 --- a/instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld +++ b/instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld @@ -6,7 +6,10 @@ "@type": "https://openminds.ebrains.eu/core/ContentType", "description": null, "displayLabel": "ilastik HDF5 image", - "fileExtension": null, + "fileExtension": [ + ".hdf5", + ".h5" + ], "name": "image/vnd.ilastik+hdf5", "relatedMediaType": null, "synonym": [ From d0bca2f235f70484aee6000b93bea94cbb1f12c7 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:43:17 +0200 Subject: [PATCH 13/23] Create image_vnd.ilastik.pixelclassification+hdf5.jsonld --- ...vnd.ilastik.pixelclassification+hdf5.jsonld | 18 ++++++++++++++++++ 1 file changed, 18 insertions(+) create mode 100644 instances/data/contentTypes/image_vnd.ilastik.pixelclassification+hdf5.jsonld diff --git a/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+hdf5.jsonld b/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+hdf5.jsonld new file mode 100644 index 00000000..07296f19 --- /dev/null +++ b/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+hdf5.jsonld @@ -0,0 +1,18 @@ +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_vnd.ilastik.pixelclassification+hdf5", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": null, + "displayLabel": "ilastik pixel classification image (HDF5)", + "fileExtension": [ + ".hdf5", + ".h5" + ], + "name": "image/vnd.ilastik.pixelclassification+hdf5", + "relatedMediaType": null, + "synonym": [ + "ilastik pixel classification image (HDF5)" + ] +} From 28df3eeff1d683832288669349e8eb502a7f085c Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:44:18 +0200 Subject: [PATCH 14/23] Update image_vnd.ilastik.pixelclassification+hdf5.jsonld --- .../image_vnd.ilastik.pixelclassification+hdf5.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+hdf5.jsonld b/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+hdf5.jsonld index 07296f19..cbdc7b0e 100644 --- a/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+hdf5.jsonld +++ b/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+hdf5.jsonld @@ -4,7 +4,7 @@ }, "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_vnd.ilastik.pixelclassification+hdf5", "@type": "https://openminds.ebrains.eu/core/ContentType", - "description": null, + "description": "The ilastik pixel classification HDF5 file is a multi-channel, f32 image where each channel's value is between 0.0 and 1.0 and represents the likelihood of a pixel belonging to a particular class.", "displayLabel": "ilastik pixel classification image (HDF5)", "fileExtension": [ ".hdf5", From 2cb3418080cd98a0a6dccb2648856cbd35395acd Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 13:48:16 +0200 Subject: [PATCH 15/23] Update application_vnd.ilastik.object-features+hdf5.jsonld --- .../application_vnd.ilastik.object-features+hdf5.jsonld | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld b/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld index 45fe3650..104a59bd 100644 --- a/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld +++ b/instances/data/contentTypes/application_vnd.ilastik.object-features+hdf5.jsonld @@ -4,7 +4,7 @@ }, "@id": "https://openminds.ebrains.eu/instances/contentTypes/application_vnd.ilastik.object-features+hdf5", "@type": "https://openminds.ebrains.eu/core/ContentType", - "description": null, + "description": "The ilastik object features HDF5 file has two data entries: table and images. The images entry contains one image cutout for each object and one mask for each object, marking the pixels occupied by that object. The table entry is saved as a numpy structured array and holds the selected feature values for each object.", "displayLabel": "ilastik object features HDF5", "fileExtension": [ ".hdf5", From de747d3466d7b2aabdf93cdbb4c147076f6e461a Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 14:17:58 +0200 Subject: [PATCH 16/23] Create image_vnd.ilastik.pixelclassification+n5.jsonld --- ...ge_vnd.ilastik.pixelclassification+n5.jsonld | 17 +++++++++++++++++ 1 file changed, 17 insertions(+) create mode 100644 instances/data/contentTypes/image_vnd.ilastik.pixelclassification+n5.jsonld diff --git a/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+n5.jsonld b/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+n5.jsonld new file mode 100644 index 00000000..7ec82774 --- /dev/null +++ b/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+n5.jsonld @@ -0,0 +1,17 @@ +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_vnd.ilastik.pixelclassification+n5", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": "The ilastik pixel classification N5 file is a multi-channel, f32 image where each channel's value is between 0.0 and 1.0 and represents the likelihood of a pixel belonging to a particular class.", + "displayLabel": "ilastik pixel classification image (N5)", + "fileExtension": [ + ".n5" + ], + "name": "image/vnd.ilastik.pixelclassification+n5", + "relatedMediaType": null, + "synonym": [ + "ilastik pixel classification image (N5)" + ] +} From 40fe740c1d8e610d29f194eb25fbfc83b99c40fd Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 14:21:41 +0200 Subject: [PATCH 17/23] Create image_vnd.ilastik.pixelclassification+neuroglancer.precomputed.jsonld --- ...classification+neuroglancer.precomputed.jsonld | 15 +++++++++++++++ 1 file changed, 15 insertions(+) create mode 100644 instances/data/contentTypes/image_vnd.ilastik.pixelclassification+neuroglancer.precomputed.jsonld diff --git a/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+neuroglancer.precomputed.jsonld b/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+neuroglancer.precomputed.jsonld new file mode 100644 index 00000000..4794a86e --- /dev/null +++ b/instances/data/contentTypes/image_vnd.ilastik.pixelclassification+neuroglancer.precomputed.jsonld @@ -0,0 +1,15 @@ +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_vnd.ilastik.pixelclassification+neuroglancer.precomputed", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": "The ilastik pixel classification neuroglancer precomputed file is a multi-channel, f32 image where each channel's value is between 0.0 and 1.0 and represents the likelihood of a pixel belonging to a particular class.", + "displayLabel": "ilastik pixel classification image (neuroglancer precomputed)", + "fileExtension": null, + "name": "image/vnd.ilastik.pixelclassification+neuroglancer.precomputed", + "relatedMediaType": null, + "synonym": [ + "ilastik pixel classification image (neuroglancer precomputed)" + ] +} From 62f2dbae9f1ecf991e6c4d4f5396a6c0611e7d3f Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 14:24:47 +0200 Subject: [PATCH 18/23] Create image_vnd.ilastik.segmentation+neuroglancer.precomputed --- ....ilastik.segmentation+neuroglancer.precomputed | 15 +++++++++++++++ 1 file changed, 15 insertions(+) create mode 100644 instances/data/contentTypes/image_vnd.ilastik.segmentation+neuroglancer.precomputed diff --git a/instances/data/contentTypes/image_vnd.ilastik.segmentation+neuroglancer.precomputed b/instances/data/contentTypes/image_vnd.ilastik.segmentation+neuroglancer.precomputed new file mode 100644 index 00000000..56b63a84 --- /dev/null +++ b/instances/data/contentTypes/image_vnd.ilastik.segmentation+neuroglancer.precomputed @@ -0,0 +1,15 @@ +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_vnd.ilastik.segmentation+neuroglancer.precomputed", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": "The ilastik segmentation neuroglancer computed file is a uint8 RGB image where each pixel is either red (255,0,0) if that pixel belongs to an object, or black (0,0,0) if that pixel does not belong to an object.", + "displayLabel": "ilastik segmentation image (neuroglancer precomputed)", + "fileExtension": null, + "name": "image/vnd.ilastik.segmentation+neuroglancer.precomputed", + "relatedMediaType": null, + "synonym": [ + "ilastik segmentation image (neuroglancer precomputed)" + ] +} From e5357b6a51ef8282e67c987af1d0ff44edd9e745 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 14:26:42 +0200 Subject: [PATCH 19/23] Create image_vnd.ilastik.segmentation+n5.jsonld --- .../image_vnd.ilastik.segmentation+n5.jsonld | 17 +++++++++++++++++ 1 file changed, 17 insertions(+) create mode 100644 instances/data/contentTypes/image_vnd.ilastik.segmentation+n5.jsonld diff --git a/instances/data/contentTypes/image_vnd.ilastik.segmentation+n5.jsonld b/instances/data/contentTypes/image_vnd.ilastik.segmentation+n5.jsonld new file mode 100644 index 00000000..d38bab48 --- /dev/null +++ b/instances/data/contentTypes/image_vnd.ilastik.segmentation+n5.jsonld @@ -0,0 +1,17 @@ +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_vnd.ilastik.segmentation+n5", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": "The ilastik segmentation N5 file is a uint8 RGB image where each pixel is either red (255,0,0) if that pixel belongs to an object, or black (0,0,0) if that pixel does not belong to an object.", + "displayLabel": "ilastik segmentation image (N5)", + "fileExtension": [ + ".n5" + ], + "name": "image/vnd.ilastik.segmentation+n5", + "relatedMediaType": null, + "synonym": [ + "ilastik segmentation image (N5)" + ] +} From 56f89a001b917305777753ae2126a0b9f3fe1ec1 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 14:29:23 +0200 Subject: [PATCH 20/23] Create image_vnd.ilastik.segmentation+dzi.jsonld --- .../image_vnd.ilastik.segmentation+dzi.jsonld | 18 ++++++++++++++++++ 1 file changed, 18 insertions(+) create mode 100644 instances/data/contentTypes/image_vnd.ilastik.segmentation+dzi.jsonld diff --git a/instances/data/contentTypes/image_vnd.ilastik.segmentation+dzi.jsonld b/instances/data/contentTypes/image_vnd.ilastik.segmentation+dzi.jsonld new file mode 100644 index 00000000..9453d7dd --- /dev/null +++ b/instances/data/contentTypes/image_vnd.ilastik.segmentation+dzi.jsonld @@ -0,0 +1,18 @@ +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_vnd.ilastik.segmentation+dzi", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": "The ilastik segmentation DZI file is a uint8 RGB image where each pixel is either red (255,0,0) if that pixel belongs to an object, or black (0,0,0) if that pixel does not belong to an object.", + "displayLabel": "ilastik segmentation image (DZI)", + "fileExtension": [ + ".dzi", + ".xml" + ], + "name": "image/vnd.ilastik.segmentation+dzi", + "relatedMediaType": null, + "synonym": [ + "ilastik segmentation image (DZI)" + ] +} From 360c9ebd38ce10432a769947014d4df19a1a3654 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Fri, 1 Sep 2023 14:32:45 +0200 Subject: [PATCH 21/23] Create image_vnd.ilastik.segmentation+dzip.jsonld --- .../image_vnd.ilastik.segmentation+dzip.jsonld | 17 +++++++++++++++++ 1 file changed, 17 insertions(+) create mode 100644 instances/data/contentTypes/image_vnd.ilastik.segmentation+dzip.jsonld diff --git a/instances/data/contentTypes/image_vnd.ilastik.segmentation+dzip.jsonld b/instances/data/contentTypes/image_vnd.ilastik.segmentation+dzip.jsonld new file mode 100644 index 00000000..c179cbea --- /dev/null +++ b/instances/data/contentTypes/image_vnd.ilastik.segmentation+dzip.jsonld @@ -0,0 +1,17 @@ +{ + "@context": { + "@vocab": "https://openminds.ebrains.eu/vocab/" + }, + "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_vnd.ilastik.segmentation+dzip", + "@type": "https://openminds.ebrains.eu/core/ContentType", + "description": "The ilastik segmentation DZIP file is a uint8 RGB image where each pixel is either red (255,0,0) if that pixel belongs to an object, or black (0,0,0) if that pixel does not belong to an object.", + "displayLabel": "ilastik segmentation image (DZIP)", + "fileExtension": [ + ".dzip" + ], + "name": "image/vnd.ilastik.segmentation+dzip", + "relatedMediaType": null, + "synonym": [ + "ilastik segmentation image (DZIP)" + ] +} From 889394fcff06a3e4579bc83b0c351bf33e1f0b39 Mon Sep 17 00:00:00 2001 From: Lyuba Zehl Date: Mon, 4 Sep 2023 12:11:09 +0200 Subject: [PATCH 22/23] Update and rename image_vnd.ilastik+hdf5.jsonld to image_x-hdf.jsonld --- .../{image_vnd.ilastik+hdf5.jsonld => image_x-hdf.jsonld} | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) rename instances/data/contentTypes/{image_vnd.ilastik+hdf5.jsonld => image_x-hdf.jsonld} (72%) diff --git a/instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld b/instances/data/contentTypes/image_x-hdf.jsonld similarity index 72% rename from instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld rename to instances/data/contentTypes/image_x-hdf.jsonld index 7a0440e5..9e8c51e4 100644 --- a/instances/data/contentTypes/image_vnd.ilastik+hdf5.jsonld +++ b/instances/data/contentTypes/image_x-hdf.jsonld @@ -2,17 +2,17 @@ "@context": { "@vocab": "https://openminds.ebrains.eu/vocab/" }, - "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_vnd.ilastik+hdf5", + "@id": "https://openminds.ebrains.eu/instances/contentTypes/image_x-hdf", "@type": "https://openminds.ebrains.eu/core/ContentType", "description": null, - "displayLabel": "ilastik HDF5 image", + "displayLabel": "HDF5 image", "fileExtension": [ ".hdf5", ".h5" ], - "name": "image/vnd.ilastik+hdf5", + "name": "image/x-hdf", "relatedMediaType": null, "synonym": [ - "ilastik HDF5 image" + "HDF5 image" ] } From d8aecedfe4c7e1c042d001735a0422904195a4cd Mon Sep 17 00:00:00 2001 From: Oliver Schmid Date: Mon, 13 Nov 2023 09:00:42 +0100 Subject: [PATCH 23/23] Update openMINDS_upstream.yml --- .github/workflows/openMINDS_upstream.yml | 10 ++++------ 1 file changed, 4 insertions(+), 6 deletions(-) diff --git a/.github/workflows/openMINDS_upstream.yml b/.github/workflows/openMINDS_upstream.yml index 8c3d05a8..e08af992 100644 --- a/.github/workflows/openMINDS_upstream.yml +++ b/.github/workflows/openMINDS_upstream.yml @@ -1,15 +1,13 @@ name: openMINDS_upstream -on: - push: - branches: - - v4 - +on: + - push + - workflow_dispatch + jobs: build: runs-on: ubuntu-latest steps: - name: Trigger central repository run: | - curl -XPOST -u "${{secrets.PAT_USERNAME}}:${{secrets.PAT_TOKEN}}" -H "Accept: application/vnd.github.everest-preview+json" -H "Content-Type: application/json" https://api.github.com/repos/HumanBrainProject/openMINDS/actions/workflows/build.yml/dispatches --data '{"ref": "main"}' curl -XPOST -u "${{secrets.PAT_USERNAME}}:${{secrets.PAT_TOKEN}}" -H "Accept: application/vnd.github.everest-preview+json" -H "Content-Type: application/json" https://api.github.com/repos/openMetadataInitiative/openMINDS/actions/workflows/build.yml/dispatches --data '{"ref": "pipeline", "inputs": {"branch": "${{github.ref_name}}", "repository": "${{ github.repository }}"}'