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Yoshikatsu Sato, the head of microscope facility @NagoyaITbM presenting practicals #EMBOLivePlant https://t.co/SVrkfOKQCn
About 17 mins, 14 secs ago by: Kota Miura (@cmci_)

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Miyo Terao Morita showing analysis of gravitropism using centrifuge microscope they newly developed. I only know… https://t.co/Atj9E4QJAY
About 49 mins, 26 secs ago by: Kota Miura (@cmci_)

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@KeikoUTorii ... which then became the cover page of Development cell. convincing. https://t.co/XBgiqJpHog
About 1 hour, 46 mins ago by: Kota Miura (@cmci_)

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@KeikoUTorii model-based hypothesis lead to experiment results with single guard cell development or multiple >2 gu… https://t.co/oGhh4NJMPh
About 1 hour, 53 mins ago by: Kota Miura (@cmci_)

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now, @KeikoUTorii on stomata development - how very specific cell fate decisions are made, with proper spacing bet… https://t.co/XoR8tpB5WR
About 2 hours, 11 mins ago by: Kota Miura (@cmci_)

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@YvonJaillais talk on nanoclustering of ROP6, great analyses using various approaches to assess protein mobility… https://t.co/WHrzBsWTYJ
About 2 hours, 27 mins ago by: Kota Miura (@cmci_)
documents:101213imagej_silent

ImageJ with fake X server

Ruben found a way to setup fake X-server in server side, that one could use ImageJ silently from client. In a sense, ImageJ head is existing so it's not really headless but it might be even less problem than using headless.jar since the silent mode described below could handle awt instances within fake-X so that ImageJ works as same as what you see on your local machine (but silently).

Startup your ssh client (putty or so) and connect to a server. Foe example

ssh YOURNAME@clnode336

You need to enter password, then

setenv DISPLAY :1
Xvfb :1 &

(error, but return) then invoke ij such as

imagej

with this, nothing happens but imagej is running remotely. You could then pass macro or scripts by adding argument.

after finishing the process, terminate the Xvfb by

fg

to bring the X forward, then kill the session if you are done.

An example command could be

fiji -macro whatevermacro.ijm
documents/101213imagej_silent.txt · Last modified: 2016/05/24 05:46 (external edit)