ScudCloud – an unofficial Slack client for Linux

Software

ScudCloud_screenshot
ScudCloud is a non official open-source Linux (Debian, Ubuntu, Kubuntu, Mint, Arch, Fedora) desktop client app for Slack.

ScudCloud improves the Slack integration with Linux desktops featuring:

  • multiple teams support
  • native system notifications
  • count of unread direct mentions at launcher/systray icon
  • alert/wobbling on new messages
  • channels quicklist (Unity only)
  • optional tray notifications and “Close to Tray”
  • follow your desktop activity and will stay online while you’re logged in (if correct packages are installed)

Tomcat 7, munin and Ubuntu 14.04

deploy, Ubuntu

Lately I had to reconfigure an Ubuntu 14.04 server.
Dealing with Tomcat 7 I’ve encountered those two situations:

Enable larger file uploads via Tomcat manager

I had a ~180 war file to deploy. Ubuntu’s Tomcat setting put a limit at 50MB. This has been solved using the tips in this post by skotfred. Unfortunately I haven’t found a more orthodox way of achieving this other than modify the /usr/share/tomcat7-admin/manager/WEB-INF/web.xml in the values max-file-size and max-request-size.

Enable Tomcat monitoring in Munin

Here I’ve followed the tips over this Serverfault discussions.
Adding a [tomcat_ *] was the key.

Manually remove a broken package on Debian/Ubuntu

Life, Ubuntu

The other day, after a do-release-update on an Ubuntu box I had some issues with a package which told me:

Errors were encountered while processing:
BROKEN-PACKAGE
E: Sub-process /usr/bin/dpkg returned an error code (1)

here’s how I solved:

mv /var/lib/dpkg/info/BROKEN-PACKAGE.* /tmp/
dpkg --remove --force-remove-reinstreq BROKEN-PACKAGE

(via)

solving DESeq2 installation issues

FLOSS, ITB@CNR, Software

At work a colleague asked me to do a system-wide installation of the R module DESeq2 in one of our internal servers.
The installation procedure is quite straight-forward:

source("http://bioconductor.org/biocLite.R")
biocLite("DESeq2")

Unfortunately I had some issues on my system, in fact I got:

…
Warning in fun(libname, pkgname) :
couldn't connect to display "localhost:12.0"
* DONE (maSigPro)

The downloaded source packages are in
	‘/tmp/RtmpfdD2RC/downloaded_packages’
Warning messages:
1: In install.packages(pkgs = doing, lib = lib, ...) :
  installation of package ‘XML’ had non-zero exit status
2: In install.packages(pkgs = doing, lib = lib, ...) :
  installation of package ‘annotate’ had non-zero exit status
3: In install.packages(pkgs = doing, lib = lib, ...) :
  installation of package ‘genefilter’ had non-zero exit status
4: In install.packages(pkgs = doing, lib = lib, ...) :
  installation of package ‘geneplotter’ had non-zero exit status
5: In install.packages(pkgs = doing, lib = lib, ...) :
  installation of package ‘DESeq2’ had non-zero exit status

I then tried to install manually the various dependencies, like XML. Still no luck. After a quick Google search I found that I was missing a couple of -dev packages on my Ubuntu machine, so I installed them:

root@server:~# apt-get install libcurl4-openssl-dev libxml2-dev

… and then re-tried to install DESeq2. This time everything was ok. Problem solved!