Bio-IT issueshttps://git.embl.de/groups/grp-bio-it/-/issues2019-06-06T18:50:39Zhttps://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/23README needs updating2019-06-06T18:50:39ZToby HodgesREADME needs updatingOnce you/we have settled on a structure for the repository, it would be good to have that reflected in the README*, so that others can orientate themselves relatively quickly if they want to contribute.
* or maybe this makes more sense ...Once you/we have settled on a structure for the repository, it would be good to have that reflected in the README*, so that others can orientate themselves relatively quickly if they want to contribute.
* or maybe this makes more sense in `CONTRIBUTING.md`...https://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/21(image macro) programming2019-05-29T07:20:36ZChristian Tischer(image macro) programming@halavaty @hossain
I also have training material for ImageJ macro programming.
I am uncertain whether this is something that should go into this repository.
Somehow I feel it should not go here, because it is not about image analysis **c...@halavaty @hossain
I also have training material for ImageJ macro programming.
I am uncertain whether this is something that should go into this repository.
Somehow I feel it should not go here, because it is not about image analysis **concepts**.
This also raises another question: If we add python specific code, probably people must know some basics of python and lumpy arrays (@stamper, do you have training material that could be referred to? ...serving as prerequisite to this repo).https://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/20Concept Maps not rendering in Chrome2019-06-06T18:51:59ZToby HodgesConcept Maps not rendering in ChromeSee https://grp-bio-it.embl-community.io/image-analysis-training-resources/modules/binarization.html as an example. Looks like this is because Chrome doesn't like some characters in the specification of the map visualisation.See https://grp-bio-it.embl-community.io/image-analysis-training-resources/modules/binarization.html as an example. Looks like this is because Chrome doesn't like some characters in the specification of the map visualisation.https://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/17permalinks2019-05-29T07:21:49ZChristian Tischerpermalinks@stamper
Is below enough for the module headers? Or do I need to add something about the permafrost?
```
---
title: Image calibration
layout: page
---
```@stamper
Is below enough for the module headers? Or do I need to add something about the permafrost?
```
---
title: Image calibration
layout: page
---
```https://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/15add content to `index.md`2019-06-06T19:00:01ZToby Hodgesadd content to `index.md`The `index.md` file is currently only a placeholder. As the landing page for the site, it should be a bit more detailed and helpful.The `index.md` file is currently only a placeholder. As the landing page for the site, it should be a bit more detailed and helpful.https://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/14add a .gitignore2019-05-28T11:45:22ZToby Hodgesadd a .gitignorewe need to ignore the `.DS_Store` filewe need to ignore the `.DS_Store` fileToby HodgesToby Hodgeshttps://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/13add LICENSE.md2019-05-28T08:45:24ZToby Hodgesadd LICENSE.mdwe need a license for the material, so that other people can use it and adapt it in the future.we need a license for the material, so that other people can use it and adapt it in the future.Toby HodgesToby Hodgeshttps://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/12add TEACHING.md2019-06-04T10:55:45ZToby Hodgesadd TEACHING.mdadd some guidance for those who wish to adapt the material for teaching in a workshop.add some guidance for those who wish to adapt the material for teaching in a workshop.Toby HodgesToby Hodgeshttps://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/11add CONTRIBUTING.md2019-05-28T09:50:42ZToby Hodgesadd CONTRIBUTING.mdadd some guidance for contributors, specifically about requirement for changes to be made on a new branchadd some guidance for contributors, specifically about requirement for changes to be made on a new branchToby HodgesToby Hodgeshttps://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/10setup GitLab Pages with Jekyll2019-05-28T12:23:17ZToby Hodgessetup GitLab Pages with JekyllToby HodgesToby Hodgeshttps://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/7external access2019-04-02T11:38:40ZChristian Tischerexternal access@stamper
Can external people:
* [X] view the project?
* [ ] raise issues?
* [ ] stage pull requests?@stamper
Can external people:
* [X] view the project?
* [ ] raise issues?
* [ ] stage pull requests?Toby HodgesToby Hodgeshttps://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/5image ethics lookup tables2020-04-23T14:21:19ZChristian Tischerimage ethics lookup tables@stamper @jhartman @heriche
I added a first concept map document with a short teaching idea.
https://git.embl.de/grp-bio-it/image-analysis-training-resources/blob/master/concept_maps/image-ethics-lookup-tables.md#image-ethics-lookup-t...@stamper @jhartman @heriche
I added a first concept map document with a short teaching idea.
https://git.embl.de/grp-bio-it/image-analysis-training-resources/blob/master/concept_maps/image-ethics-lookup-tables.md#image-ethics-lookup-tables
Does that look like how we envision this?
How would one continue?
I guess:
1. Upload example images (and links to them into the concept map document?!)
2. Design a formative assessment (where to put it?)
Anything else? Any other comments (also content-wise)?https://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/3Push rights2019-02-24T19:52:21ZChristian TischerPush rights@stamper
How do we handle the push rights?
Shall we fork and stage merge requests?
Or shall we all have push rights?
Or push to some specific branches?
I just tried to push and go this message:
```
remote: GitLab: You are not al...@stamper
How do we handle the push rights?
Shall we fork and stage merge requests?
Or shall we all have push rights?
Or push to some specific branches?
I just tried to push and go this message:
```
remote: GitLab: You are not allowed to push code to protected branches on this project.
To git.embl.de:grp-bio-it/image-analysis-training-resources.git
! [remote rejected] master -> master (pre-receive hook declined)
```Toby HodgesToby Hodgeshttps://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/2How to draw concept maps2019-06-06T19:01:54ZChristian TischerHow to draw concept mapsFrom @heriche:
Following up on the discussion about drawing diagrams, I just came across this R package:
http://rich-iannone.github.io/DiagrammeR/From @heriche:
Following up on the discussion about drawing diagrams, I just came across this R package:
http://rich-iannone.github.io/DiagrammeR/https://git.embl.de/grp-bio-it/image-analysis-training-resources/-/issues/1Consider adding guidance/requirements for inclusion of example images2020-04-23T14:29:39ZToby HodgesConsider adding guidance/requirements for inclusion of example images> All of these images are freely available and chosen according to availability of good quality metadata associated with the image.> All of these images are freely available and chosen according to availability of good quality metadata associated with the image.