Re: [ccp4bb] Last few months updates, updated coot, ccp4i2, imosflm, etc

[David Waterman]

Dear Boaz, Jan,

Currently the base version 7.0.0 is installed and all updates are then
applied on top of this. This is very costly in terms of time and bandwidth.
To mitigate this, a new mechanism is being developed by CCP4. A checkpoint
version will be installed (something like minus 10 updates from the most
recent) and then the last few updates applied. This will help improve the
speed of installation, while still allowing a few updates to be rolled
back, if required. The final kinks are being ironed out from the new
installers at the moment, so these should be available fairly soon. There
will eventually be a new release of CCP4, resetting the update count to
zero, but that's a longer term plan.

Cheers
-- David


On Sat, 7 Jul 2018 at 19:12, Boaz Shaanan  wrote:

> Hi,
>
>
> For now, until there is a complete new version, I think that if you pick
> up the latest build from the ccp4 site it includes all the updates. I could
> be wrong though, but the CCP4 people will confirm this (or not).
>
>
> Cheers,
>
>
>   Boaz
>
>
>
>
>
>
>
>
>
>
>
>
> *Boaz Shaanan, Ph.D. Dept. of Life
> Sciences  Ben-Gurion University of the
> Negev  Beer-Sheva
> 84105
> Israel
> E-mail:
> bshaa...@bgu.ac.il  Phone: 972-8-647-2220
>Fax:   972-8-647-2992 or 972-8-646-1710*
>
>
>
>
>
>
>
> --
> *From:* CCP4 bulletin board  on behalf of Jan
> Stransky 
> *Sent:* Saturday, July 7, 2018 8:52 PM
> *To:* CCP4BB@JISCMAIL.AC.UK
> *Subject:* Re: [ccp4bb] Last few months updates, updated coot, ccp4i2,
> imosflm, etc
>
> Dear Charles,
> is there a plan to release new base package of CCP4 which would contain
> all updates, so we don't have to go through the already quite lengthy
> update process with new installations?
> Best regards,
> Jan
>
> On 07/05/2018 03:15 PM, Ballard, Charles (STFC,RAL,CSE) wrote:
> > For those of you not applying updates, the last few months updates have
> > included
> >
> > * phaser 2.8
> > * ccp4i2
> > * dials 1.9 (1.10 coming soon)
> > * ccp4mg
> > * coot 0.8.9.1
> >  * imosflm/ipmosfm 7.2.2
> >
> > plus interfaces to simbad, ample arcimboldo, and a dials gui DUI
> >
> > Update ID: 7.0.050
> > Date: 17.01.18
> >
> > Component  Description  Mac OS 64-bit   Linux 32-bitLinux
> 64-bitWindows
> > 32-bitWindows 64-bit
> > coot  0.8.9   yes yes yes -   -
> > aimless   0.6.2   yes yes yes yes yes
> >
> >
> > Update ID: 7.0.051
> > Date: 09.02.18
> >
> > Component  Description  Mac OS 64-bit   Linux 32-bitLinux
> 64-bitWindows
> > 32-bitWindows 64-bit
> > phaser2.8.2   yes yes yes yes yes
> > ccp4i updates for phaser 2.8  yes yes yes yes yes
> > arcimboldoupdates for phaser 2.8  yes yes yes yes yes
> > ample update to 1.4.1 yes yes yes yes yes
> > simbadupdate to 0.1.10yes yes yes -   -
> > dials update to 1.8.4 yes yes yes yes yes
> > ccp4i update for ampleyes yes yes yes yes
> >
> > Update ID: 7.0.052
> > Date: 28.02.18
> >
> > Component  Description  Mac OS 64-bit   Linux 32-bitLinux
> 64-bitWindows
> > 32-bitWindows 64-bit
> > ccp4i2Numerous bug fixes, improvments to stability, speed and
> > efficiencyyes yes yes yes yes
> >New: Arcimboldo yes yes yes -   -
> >New: Simbad yes yes yes -   -
> >New: Ample  yes yes yes yes yes
> >Enhancements to existing interfaces yes yes yes
> yes yes
> >New crystal definition and interface introduced yes yes
> yes yes yes
> >
> > Update ID: 7.0.053
> > Date: 19.03.18
> >
> > Component  Description  Mac OS 64-bit   Linux 32-bitLinux
> 64-bitWindows
> > 32-bitWindows 64-bit
> > ccp4mgfix issues with some refmac output  yes yes
> yes yes yes
> > pointless update to 1.11.10, read nXDS files  yes yes
> yes yes yes
> > buccaneer Bug fixes   yes yes yes yes yes
> > refmacBug fixes and speed enhancementsyes yes
> yes yes yes
> > crank2Bug fixes and enhancements  yes yes yes
> yes yes
> > arcimboldoBug fixes   yes yes yes yes yes
> > molrepBug fiesyes yes yes yes yes
> > fragon0.1.0, MR pipeline  yes yes yes -   -
> > acedrgNew features and bug fixes  yes yes yes
> yes yes
> > rabdamradition damage detection, command line onlyyes
> yes yes yes yes
> > clipper   bug fix in mtz writing routine  yes yes 

[ccp4bb] Reminder: Postdoctoral Positions in Biochemistry, University of Bristol

[Burak Kabasakal]

Dear all,


Please find the advertisement below for post-doc positions in Bristol. The 
application deadline is Thursday 12th July.


Thanks,


Regards,


Dr Burak V Kabasakal

Research Associate

University of Bristol
Biomedical Sciences Building
University Walk
Clifton
Bristol, UK
BS8 1TD
+44 11739 41251
burak.kabasa...@bristol.ac.uk



Two Wellcome Trust-funded Postdoc Positions available in the group of 
Christiane Berger-Schaffitzel, School of Biochemistry, University of Bristol !


The successful candidate(s) will join a multi-disciplinary team of 
international researchers investigating the structures and mechanisms of human 
mRNA quality control (NMD), to recognise and eliminate faulty mRNAs to 
forestall synthesis of truncated, disease-causing proteins. We employ a 
combination of biochemistry, electron cryo-microscopy and X-ray 
crystallography, utilising our excellent MultiBac baculovirus/insect cell 
protein production and structural biology facilities at Bristol.


We welcome applications from enthusiastic and motivated individuals with a PhD 
(or about to obtain one) in structural biology, biochemistry, biophysics or 
related, with a strong interest in inter-disciplinary structural molecular 
biology research.


The posts are full-time and up to five years.


Application deadline: Thursday 12th July 2018


For details and application procedure, please visit

http://www.bristol.ac.uk/jobs/find/details.html?nPostingId=13634=66474=Q50FK026203F3VBQBV7V77V83=UK=uobext


For informal enquiries, please contact: 
christiane.berger-schaffit...@bristol.ac.uk


Links:

http://www.bris.ac.uk/biochemistry/people/christiane-h-berger-schaffitzel/index.html

https://www.researchgate.net/profile/Christiane_Schaffitzel






Dr Christiane Berger-Schaffitzel
Wellcome Trust Investigator
Professor of Biochemistry
University of Bristol
Biomedical Sciences
University Walk
Bristol, BS8 1TD

Tel: +44 (0)117 394 1869
Email: 
christiane.berger-schaffit...@bristol.ac.uk


A top 4 UK university with leading employers (High Fliers 2018)

A top 5 UK university for research (REF 2014)

A top 10 UK university (QS Ranking 2018)







To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1

[ccp4bb] PhD position in structural biology - membrane proteins

[Albert Guskov]

Dear all,
I have an immediate opening for a PhD candidate in my lab. The starting
date should be before 1st of January 2019. The position is fully funded for
4 years.
For our recent work please check:
Garaeva et al,, Nature Structural & Molecular Biology, 2018, doi:
10.1038/s41594-018-0076-y
Santos et al., eLife, 2018, doi: 10.7554/eLife.35828
Gati& Stetsenko et al., Nature Communications, 2017, doi:
10.1038/s41467-017-01483-7
The application (including cv, a letter of motivation and names of two
referees) should be submitted before 15th of August.
See the attached file for more information.
Albert



To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/webadmin?SUBED1=CCP4BB=1
<>
<>