germagogo.blogg.se - How to install putty on mac sierra

#HOW TO INSTALL PUTTY ON MAC SIERRA HOW TO#
#HOW TO INSTALL PUTTY ON MAC SIERRA INSTALL#
#HOW TO INSTALL PUTTY ON MAC SIERRA SOFTWARE#
#HOW TO INSTALL PUTTY ON MAC SIERRA ZIP#

and fastqc will create the HTML reports for the files you supplied To do the first just supply the name of the file(s) that you want toĪnalyse on the command line, so instead of running Reports without trying to draw a user interface. Running fastqc in non-interactive mode so that it calculates its Launch its graphical interface, but you're operating in an environment This is because you're running fastqc in a mode where it's going to try to

#HOW TO INSTALL PUTTY ON MAC SIERRA HOW TO#

There are plenty of tutorials showing how to use these but if you can't figure it out write back here and I'll go through it. OSX: XQuartz ( Windows: VcSrv ( ) and Putty ( )

#HOW TO INSTALL PUTTY ON MAC SIERRA SOFTWARE#

The normal combination of software we use would be: Exactly how you do this will depend on the operating system and software you're using on your desktop. You'll still need to work out how you're going to look at the reports (eg copying them back to your local machine), but fastqc will have done its bit.įor the second option you'll need to run an X server on your local machine, and then when you connect to your linux box and add an option to create an X-tunnel when you set up your SSH connection. and fastqc will create the HTML reports for the files you supplied non-interactively. fastqc mydata1.fq.gz mydata2.f2.gz etc. To do the first just supply the name of the file(s) that you want to analyse on the command line, so instead of running Setting up your environment to allow graphics to be drawn. Running fastqc in non-interactive mode so that it calculates its reports without trying to draw a user interface. This is because you're running fastqc in a mode where it's going to try to launch its graphical interface, but you're operating in an environment which has no way to draw graphics.

#HOW TO INSTALL PUTTY ON MAC SIERRA INSTALL#

but today I mistakenly deleted it, then install again. It is the latest Mac Catalina system (10.15.3). Lrwxr-xr-x 1 root admin 41 Mar 11 11:56 /usr/local/bin/fastqc -> /Users/xiaodemon/Downloads/Bioinfo/FastQC

type sudo whoami, require the password, then show "root".

when I cd into the fastqc, it displays the same contents in the absolute path folder (/Downloads) I can cd to /usr/local/bin, then display lots directories including fastqc.

Is there already a fastqc entry in /usr/local/bin? What do you get from ls -l /usr/local/bin/fastqc.

Can you write to /usr/local/bin? Try sudo touch /usr/local/bin/test.

Does sudo work? What does sudo whoami say?.

Does /usr/local/bin actually exist? (what does ls /usr/local/bin give you?).

That's not an environment I've directly used. This looks like something specific to the windows linux subsystem. But when I try to run sudo ln -s /path/to/FastQC/fastqc /usr/local/bin/fastqc I get this error: ln: failed to access '/mnt/c/Users/MyUser/AppData/Local/Packages/CanonicalGroupLimited.UbuntuonWindows_79rhkp1fndgsc/LocalState/rootfs/home/myuser/.local/bin/fastqc': Permission deniedĮdit: I did not mentioned it, but I have of course replaced /path/to/FastQC/fastqc and /usr/local/bin/fastqc whit the correct paths From the manual, I understand we need to make the wrapper script called fastqc executable using chmod 755 fastqc and I did that. I can also run it interactively from run_fastqc.bat file. fastqc -v, I get FastQC v0.11.9 as output. BUT, I'm only able to run fastqc when I'm on the specific folder that has the fastq file. I am using windows with linux (Ubuntu) as a subsystem. I have follow the instalation steps indicated here.

#HOW TO INSTALL PUTTY ON MAC SIERRA ZIP#

I have downloaded FastQC v0.11.9 (Win/Linux zip file) from. I'm trying to install the newest version of fastqc. Hi! After searching everywhere I found this post that might help me to solve my problem.