From 6e879b4c6b1a22043a6c9124f4da9a4a0b7829a9 Mon Sep 17 00:00:00 2001 From: Rohan Girish Date: Wed, 25 Mar 2026 16:18:32 +0100 Subject: [PATCH 1/5] Update installation instructions for Omero packages --- README.md | 9 +++++++++ 1 file changed, 9 insertions(+) diff --git a/README.md b/README.md index dcae903..a5cac89 100644 --- a/README.md +++ b/README.md @@ -58,6 +58,13 @@ following necessary update sites for this package. The **`IMCF Uni Basel`** update-site will always provide the latest compatible combination of *official*`.jar` file to use this package. +### Manual Downloads + +In addition to the update sites, two manual downloads concerning Omero are necessary: + +- [simple-omero-client] +- [omero-insight] + ### 🏗 Alternative: SciJava Maven Package 👷 💡 **IMPORTANT:** 💡 same as for the *default* installation previously @@ -122,3 +129,5 @@ correct_and_project(raw_image, out_path, model, "Maximum", ".ics") [apidocs]: https://imcf.one/apidocs/imcflibs/imcflibs.html [pdoc]: https://pdoc.dev/ [pypi]: https://pypi.org/project/imcflibs/ +[simple-omero-client]: https://github.com/GReD-Clermont/simple-omero-client +[omero-insight]: https://github.com/ome/omero-insight From 0cb874711ad40a1f60de472b5b54acdcf73d3d12 Mon Sep 17 00:00:00 2001 From: Rohan Girish Date: Wed, 25 Mar 2026 16:22:39 +0100 Subject: [PATCH 2/5] Remove trailing spaces --- README.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/README.md b/README.md index a5cac89..a6bb8d5 100644 --- a/README.md +++ b/README.md @@ -129,5 +129,5 @@ correct_and_project(raw_image, out_path, model, "Maximum", ".ics") [apidocs]: https://imcf.one/apidocs/imcflibs/imcflibs.html [pdoc]: https://pdoc.dev/ [pypi]: https://pypi.org/project/imcflibs/ -[simple-omero-client]: https://github.com/GReD-Clermont/simple-omero-client -[omero-insight]: https://github.com/ome/omero-insight +[simple-omero-client]: https://github.com/GReD-Clermont/simple-omero-client +[omero-insight]: https://github.com/ome/omero-insight From 5ac40fc0357f6cff921795945be27de7971fc1af Mon Sep 17 00:00:00 2001 From: Niko Ehrenfeuchter Date: Wed, 25 Mar 2026 22:03:09 +0100 Subject: [PATCH 3/5] Whitespace and plural --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index a6bb8d5..93ec45c 100644 --- a/README.md +++ b/README.md @@ -56,7 +56,7 @@ following necessary update sites for this package. - TrackMate-MorpholibJ The **`IMCF Uni Basel`** update-site will always provide the latest compatible -combination of *official*`.jar` file to use this package. +combination of *official* `.jar` files to use this package. ### Manual Downloads From 5a27f920fa94af3f82efaccd5719b218712e3973 Mon Sep 17 00:00:00 2001 From: Niko Ehrenfeuchter Date: Wed, 25 Mar 2026 22:03:39 +0100 Subject: [PATCH 4/5] Correct capitalization of 'OMERO' in README --- README.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/README.md b/README.md index 93ec45c..29ee4e1 100644 --- a/README.md +++ b/README.md @@ -60,7 +60,7 @@ combination of *official* `.jar` files to use this package. ### Manual Downloads -In addition to the update sites, two manual downloads concerning Omero are necessary: +In addition to the update sites, two manual downloads concerning OMERO are necessary: - [simple-omero-client] - [omero-insight] From a986a73b14f89a33636132027181812f003944fe Mon Sep 17 00:00:00 2001 From: Niko Ehrenfeuchter Date: Wed, 25 Mar 2026 22:09:17 +0100 Subject: [PATCH 5/5] Mention OMERO for SciJava install method Clarify manual download instructions for OMERO and update Fiji requirements. --- README.md | 10 ++++++---- 1 file changed, 6 insertions(+), 4 deletions(-) diff --git a/README.md b/README.md index 29ee4e1..21880b9 100644 --- a/README.md +++ b/README.md @@ -58,9 +58,10 @@ following necessary update sites for this package. The **`IMCF Uni Basel`** update-site will always provide the latest compatible combination of *official* `.jar` files to use this package. -### Manual Downloads +### Manual Downloads for OMERO -In addition to the update sites, two manual downloads concerning OMERO are necessary: +In addition to the update sites, two manual downloads concerning OMERO are +necessary: - [simple-omero-client] - [omero-insight] @@ -68,8 +69,9 @@ In addition to the update sites, two manual downloads concerning OMERO are neces ### 🏗 Alternative: SciJava Maven Package 👷 💡 **IMPORTANT:** 💡 same as for the *default* installation previously -described, you will need to enable **all Update Sites listed above** in your -Fiji as well when using the method described here! +described, you will need to enable **all Update Sites listed above** (and +obviously the respective OMERO downloads) in your Fiji as well when using the +method described here! The most up-to-date `.jar` (or any other published version, including pre-releases) for this package can be always found on the [Scijava Maven