Re: jessie not mounting all filesystems

2015-01-30 Thread Tomas Pospisek
Am 29.01.2015 um 20:52 schrieb Daniel Pocock:

> I just upgraded a system with many filesystems to jessie
> 
> On many occasions when I boot this system it is failing to mount one of
> the filesystems and systemd gives the emergency login prompt
> 
> It is not always the same filesystem though, it seems to be random.
> Most are ext4 on LVM, there are a couple of BtrFS.
> 
> In every case I've been able to log in, fsck the filesystem and mount it
> manually.
> 
> Is there any problem that anybody is already aware of?
> 
> Looking at journalctl output I couldn't see any reason why the mount
> failed, do I have to enable something else to get more helpful log data
> about the problem?

Hearing this, the first thought that came to my mind is: timeouts.

Maybe systemd is trying to mount the FS's in parallel or maybe you get
contention on IO buffers and stuff takes too long for systemd's taste
and it switches into the "sky is falling" mode? (As can be seen from the
wording I have no solid knowledge of the real workings of that system).

*t



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Bug#776628: ITP: needrestart-session -- check for processes need to be restarted in user sessions

2015-01-30 Thread Patrick Matthäi
Package: wnpp
Severity: wishlist
Owner: "Patrick Matthäi" 

* Package name: needrestart-session
  Version : 0.3
  Upstream Author : Thomas Liske
* URL : https://github.com/liske/needrestart-session
* License : GPL-2+
  Programming Lang: Perl
  Description : check for processes need to be restarted in user sessions

 needrestart checks which processes need to be restarted after library upgrades.
 needrestart-session implements a notification of user sessions about their
 obsolete processes after system upgrades.


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Re: Bug#776628: ITP: needrestart-session -- check for processes need to be restarted in user sessions

2015-01-30 Thread Ritesh Raj Sarraf

On 01/30/2015 03:46 PM, Patrick Matthäi wrote:
> * Package name: needrestart-session
>   Version : 0.3
>   Upstream Author : Thomas Liske
> * URL : https://github.com/liske/needrestart-session
> * License : GPL-2+
>   Programming Lang: Perl
>   Description : check for processes need to be restarted in user sessions
> 
>  needrestart checks which processes need to be restarted after library 
> upgrades.
>  needrestart-session implements a notification of user sessions about their
>  obsolete processes after system upgrades.


Just FYI. Guido Gunther has done something similar with whatmaps

https://honk.sigxcpu.org/piki/projects/whatmaps


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Re: Bug#776628: ITP: needrestart-session -- check for processes need to be restarted in user sessions

2015-01-30 Thread Paul Wise
On Fri, Jan 30, 2015 at 6:48 PM, Ritesh Raj Sarraf wrote:

> Just FYI. Guido Gunther has done something similar with whatmaps
>
> https://honk.sigxcpu.org/piki/projects/whatmaps

I count at least 6 implementations of the concept now:

checkrestart (from debian-goodies)
needrestart
whatmaps
https://anonscm.debian.org/cgit/mirror/dsa-nagios.git/tree/dsa-nagios-checks/checks/dsa-check-libs
http://tracer-package.com/
needs-restarting (from yum)

Only needrestart seems to have the ability to notify user sessions
about things that need restarting.

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https://wiki.debian.org/PaulWise


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Bug#776650: ITP: wmget -- Background download manager in a Window Maker dockapp

2015-01-30 Thread Doug Torrance
Package: wnpp
Severity: wishlist
Owner: Doug Torrance 

* Package name: wmget
  Version : 0.6.0
  Upstream Author : Aaron Trickey 
* URL : http://amtrickey.net/wmget/
* License : Expat
  Programming Lang: C
  Description : Background download manager in a Window Maker dockapp

wmget is a dock app for the GNU Window Maker window manager
(or one of the many other WM's which support dockapps) which
makes it more convenient to perform long downloads in the background.
It uses the excellent libcurl library, part of the cURL automated-download
program, to perform file retrieval

wmget was previously orphaned and later removed from Debian [1], but I intend
to maintain it.

[1] https://packages.qa.debian.org/w/wmget/news/20100917T163914Z.html


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Bug#776654: ITP: avro-java -- Apache Avro data serialization system

2015-01-30 Thread Emmanuel Bourg
Package: wnpp
Severity: wishlist
Owner: Emmanuel Bourg 

* Package name: avro-java
  Version : 1.7.7
  Upstream Author : The Apache Software Foundation
* URL : http://avro.apache.org
* License : Apache-2.0
  Programming Lang: Java
  Description : Apache Avro data serialization system

Apache Avro is a data serialization system providing:
  * Rich data structures.
  * A compact, fast, binary data format.
  * A container file, to store persistent data.
  * Remote procedure call (RPC).
  * Simple integration with dynamic languages. Code generation is not required
to read or write data files nor to use or implement RPC protocols. Code
generation as an optional optimization, only worth implementing
for statically typed languages.

Upstream support multiple languages but this package will only focus
on the Java part which is required to package Hadoop.


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Bug#776655: ITP: rna-star -- ultrafast universal RNA-seq aligner

2015-01-30 Thread Andreas Tille
Package: wnpp
Severity: wishlist
Owner: Andreas Tille 

* Package name: rna-star
  Version : 2.4.0i
  Upstream Author : Alexander Dobin 
* URL : https://github.com/alexdobin/STAR
* License : MIT
  Programming Lang: C++
  Description : ultrafast universal RNA-seq aligner
 Spliced Transcripts Alignment to a Reference (STAR) software based on a
 previously undescribed RNA-seq alignment algorithm that uses sequential
 maximum mappable seed search in uncompressed suffix arrays followed by
 seed clustering and stitching procedure. STAR outperforms other aligners
 by a factor of >50 in mapping speed, aligning to the human genome 550
 million 2 × 76 bp paired-end reads per hour on a modest 12-core server,
 while at the same time improving alignment sensitivity and precision. In
 addition to unbiased de novo detection of canonical junctions, STAR can
 discover non-canonical splices and chimeric (fusion) transcripts, and is
 also capable of mapping full-length RNA sequences. Using Roche 454
 sequencing of reverse transcription polymerase chain reaction amplicons,
 the authors experimentally validated 1960 novel intergenic splice
 junctions with an 80-90% success rate, corroborating the high precision
 of the STAR mapping strategy.

This package is maintained by the Debian Med team at
Vcs-Svn: svn://anonscm.debian.org/debian-med/trunk/packages/rna-star/trunk/


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Bug#776678: ITP: python-screed -- short nucleotide read sequence utils in Python

2015-01-30 Thread Andreas Tille
Package: wnpp
Severity: wishlist
Owner: Andreas Tille 

* Package name: python-screed
  Version : 0.7.1
  Upstream Author : Michael R. Crusoe 
* URL : https://screed.readthedocs.org
* License : BSD-3-Clause
  Programming Lang: Python
  Description : short nucleotide read sequence utils in Python
 Screed parses FASTA and FASTQ files, generates databases, and lets you query
 these databases. Values such as sequence name, sequence description, sequence
 quality, and the sequence itself can be retrieved from these databases.


This ITP actually belongs to Michael R. Crusoe who tried to send it
on a host without SMTP and so I'm proxying it.  The package is
team maintained by the Debian Med team anyway at
  Vcs-Git: git://anonscm.debian.org/debian-med/python-screed.git


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Bug#776690: ITP: libnet-syslog-perl -- Perl module for sending syslog messages to remote server

2015-01-30 Thread Alexander Zangerl
Package: wnpp
Severity: wishlist
Owner: Alexander Zangerl 

* Package name: libnet-syslog-perl
  Version : 0.04
  Upstream Author : Les Howard 
* URL : http://search.cpan.org/dist/Net-Syslog/
* License : Artistic
  Programming Lang: Pure Perl
  Description : Perl module for sending syslog messages to remote server

 Net::Syslog implements the UDP syslog forwarding protocol (RFC 5426).
 It is not intended to replace the Sys::Syslog or Unix::Syslog modules, but 
 instead provides a method of using syslog when a local syslogd is 
 unavailable or when you need to send messages directly to a remote syslogd.


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