mainpages:courses:basiccourse_preparation
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mainpages:courses:basiccourse_preparation [2012/02/03 14:39] – kota | mainpages:courses:basiccourse_preparation [2019/01/31 12:11] (current) – kota | ||
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Before you come to the course, there are several things you should do by yourself. | Before you come to the course, there are several things you should do by yourself. | ||
- | - Installation of Fiji (ImageJ). | + | - Installation |
- | - Download course package. | + | - Install plugins using the Fiji updater and Update Sites. |
- | - If you have problem, | + | - If you have a problem, |
**Details: **\\ | **Details: **\\ | ||
Line 11: | Line 11: | ||
===== 1. Installation of the newest version Fiji(ImageJ). ===== | ===== 1. Installation of the newest version Fiji(ImageJ). ===== | ||
- | Please be ready with the newest Fiji (ImageJ) | + | Please be ready with the newest Fiji installed |
- | + | ||
- | **If you already have ImageJ in your machine, place a second Fiji(ImageJ) on desktop or somewhere** different from the one you have already. This is to avoid so called "class conflict" | + | |
==== INSTRUCTION ==== | ==== INSTRUCTION ==== | ||
**step 1. Download Fiji (ImageJ)**\\ | **step 1. Download Fiji (ImageJ)**\\ | ||
- | go to the Fiji download page\\ | + | go to the Fiji download page:\\ |
- | http://pacific.mpi-cbg.de/wiki/ | + | https://imagej.net/Fiji/Downloads |
- | download | + | Download the latest one, whichever fits your OS. \\ |
- | Then install the program. | + | |
+ | In Windows | ||
**step 2. Upgrading**\\ | **step 2. Upgrading**\\ | ||
- | Start Fiji. | + | Launch |
- | /* | + | {{ : |
- | **step 3 Check ImageJ Version**\\ | + | |
- | restart ImageJ. In the menu, do [help -> about ImageJ...].\\ | + | |
- | If you see " | + | |
- | */ | + | |
- | ===== 2. Downloading textbook, plugins | + | If nothing is listed, just close the window because your Fiji is at the latest status. If you see the list like the image shown above, then click "Apply Changes" |
- | Please download zipped file from the download link I will send you. | + | You might need to restart and run the updater two times, as updater itself sometimes needs to be updated first before other things. |
- | name of the file is | ||
- | **course_files20120200.zip**\\ | + | ===== 2. Install plugins ===== |
- | ... inside, there are two folders and a textbook PDF (I might send you this pdf separately).\\ | + | From the Fiji jmenu bar, select [Help > Update...] |
+ | * The window " | ||
+ | * In that window, click the button " | ||
+ | * Another window called " | ||
+ | * Depending on the workshop program, I will ask you to install more plugins. In that case, please also tick update sites that I will tell you to install. Such as: | ||
+ | * " | ||
+ | * " | ||
+ | * After ticking required update sites, close the " | ||
+ | * Back to the " | ||
- | 1. Sample_Images\\ | + | /* |
- | containing image files we use in the course: copy it into your laptop. when expanded, size is about 250Mb. | + | |
- | 2. Plugins\\ | + | Please install 5 plugins. Download a .jar or a .class file from the following links. |
- | ImageJ PlugIns we use in the course: please copy this folder under ' | + | |
+ | * Sample Image Loader | ||
+ | * https:// | ||
+ | * Mosaic ToolsSuite (ParticleTracker) | ||
+ | * http:// | ||
+ | * Pure Denoise | ||
+ | * http:// | ||
+ | * Running ZProjector | ||
+ | * http:// | ||
+ | * Polynomial Fit | ||
+ | * http:// | ||
- | 3. PDF\\ | + | Then install plugins one by one, be selecting [Plugins > Install Plugins] in the Fiji menu and choose the file you downloaded. The plugin jar file could also be dragged and dropped in the Fiji menue bar to save it in the plugin folder. |
- | references. | + | |
- | **Course Textbook** | + | */ |
- | Follow the link below, click the pdf in the file listing. You will see a new page with " | + | ===== Optional: The Basic Course Textbook ===== |
- | [[https:// | ||
- | ===== MiSC ===== | + | If you want a textbook, follow the link below and click the textbook image. Downloading of the textbook should then start. |
- | Please bring down power extension cable (for your laptop) for the course! Those of you with PC working without external supply for more than 2hours | + | http:// |
+ | |||
+ | /* | ||
+ | ===== Misc ===== | ||
+ | |||
+ | Please bring down power extension cable (for your laptop) for the course! Those of you with a laptop that works more than 2hours | ||
+ | */ |
mainpages/courses/basiccourse_preparation.1328279970.txt.gz · Last modified: 2016/05/24 12:46 (external edit)