I re-read this thread because I was confused by it, esp. the discussion on
having to use the command line to run old programs! I assumed therefore that
the old ccp4i gui had finally disappeared. Anyhow, I just installed 7.1 and
it's still there, complete with the Program List dropdown! In case a
rom: CCP4 bulletin board mailto:CCP4BB@JISCMAIL.AC.UK>>
On Behalf Of Eleanor Dodson
Sent: Tuesday, July 7, 2020 12:25 PM
To: CCP4BB@JISCMAIL.AC.UK<mailto:CCP4BB@JISCMAIL.AC.UK>
Subject: Re: [ccp4bb] Accessing full list of programs in CCP4I2
Yes - there are things I use all the time whi
<CCP4BB@JISCMAIL.AC.UK>
On Behalf Of Eleanor Dodson
Sent: Tuesday, July 7, 2020 12:25 PM
To:
CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] Accessing full list of programs in CCP4I2
Yes - there are things I use all the time which are not part of the CCP4I2 list
pdbset to generate
20 12:25 PM
To: CCP4BB@JISCMAIL.AC.UK<mailto:CCP4BB@JISCMAIL.AC.UK>
Subject: Re: [ccp4bb] Accessing full list of programs in CCP4I2
Yes - there are things I use all the time which are not part of the CCP4I2 list
pdbset to generate symmetry equivalents or find the centre of mass etc etc
c
> Herman
>>
>>
>>
>> *Von:* CCP4 bulletin board *Im Auftrag von
>> *Oganesyan,
>> Vaheh
>> *Gesendet:* Mittwoch, 8. Juli 2020 16:23
>> *An:* CCP4BB@JISCMAIL.AC.UK
>> *Betreff:* [EXTERNAL] Re: [ccp4bb] Accessing full list of programs in
>> CCP4I2
k to your mailbox,
>
> Herman
>
>
>
> *Von:* CCP4 bulletin board *Im Auftrag von *Oganesyan,
> Vaheh
> *Gesendet:* Mittwoch, 8. Juli 2020 16:23
> *An:* CCP4BB@JISCMAIL.AC.UK
> *Betreff:* [EXTERNAL] Re: [ccp4bb] Accessing full list of programs in
> CCP4I2
>
>
. Juli 2020 16:23
An: CCP4BB@JISCMAIL.AC.UK
Betreff: [EXTERNAL] Re: [ccp4bb] Accessing full list of programs in CCP4I2
EXTERNAL : Real sender is
owner-ccp...@jiscmail.ac.uk<mailto:owner-ccp...@jiscmail.ac.uk>
Thank you for explanation. There are many small programs in CCP4 that have not
: [ccp4bb] Accessing full list of programs in CCP4I2
I understand that one is used to the programs one is familiar with and Eleanor
especially is very fond of these things, but there are several things which can
be done for example in Coot (symmetry coordinates etc) . It is just another way
to do it
justified?
From: CCP4 bulletin board On Behalf Of Eleanor Dodson
Sent: Tuesday, July 7, 2020 12:25 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] Accessing full list of programs in CCP4I2
Yes - there are things I use all the time which are not part of the
CCP4I2 list
pd
There seems to be a list of the 7.0 programs (and documentation!) still
available:
http://www.ccp4.ac.uk/html/FUNCTION.html
I hope this is not going away!
eab
On 07/07/2020 12:09 PM, Tim Gruene wrote:
Dear Kelvin,
the command 'ls $CBIN' lists the majority of CCP4 programs on your
system. This
om> wrote:
>>
>>> ... and how all these changes being justified?
>>>
>>>
>>>
>>> *From:* CCP4 bulletin board * On Behalf Of *Eleanor
>>> Dodson
>>> *Sent:* Tuesday, July 7, 2020 12:25 PM
>>> *To:* CCP4BB@JISCMA
for that.
> Just my 2 cents.
>
> Cheers
> Christian
>
> On Tue, Jul 7, 2020 at 6:30 PM Oganesyan, Vaheh
> wrote:
>
> ... and how all these changes being justified?
>
> FROM: CCP4 bulletin board ON BEHALF OF Eleanor Dodson
> SENT: Tuesday, July 7, 202
ulletin board * On Behalf Of *Eleanor
>> Dodson
>> *Sent:* Tuesday, July 7, 2020 12:25 PM
>> *To:* CCP4BB@JISCMAIL.AC.UK
>> *Subject:* Re: [ccp4bb] Accessing full list of programs in CCP4I2
>>
>>
>>
>> Yes - there are things I use all the time which
vaheh.oganes...@astrazeneca.com> wrote:
> … and how all these changes being justified?
>
>
>
> *From:* CCP4 bulletin board * On Behalf Of *Eleanor
> Dodson
> *Sent:* Tuesday, July 7, 2020 12:25 PM
> *To:* CCP4BB@JISCMAIL.AC.UK
> *Subject:* Re: [ccp4bb] Accessing
… and how all these changes being justified?
From: CCP4 bulletin board On Behalf Of Eleanor Dodson
Sent: Tuesday, July 7, 2020 12:25 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: Re: [ccp4bb] Accessing full list of programs in CCP4I2
Yes - there are things I use all the time which are not part of the
Yes - there are things I use all the time which are not part of the CCP4I2
list
pdbset to generate symmetry equivalents or find the centre of mass etc etc
coordconv to turn orthogonal coordinates to fractional - after all we are
crystallographers and need to relate models to unit cells..
distang t
For occasions like Laus, it would be useful to further on have
access to the
CCP4 v7.0 Program Documentation,
even if the programs are not updated as Christian explained.
I was for instance looking for translating coordinates as in pdbset,
but couldn't find a replacement in the ccp4i2 gui.
Gr
Dear Kelvin,
the command 'ls $CBIN' lists the majority of CCP4 programs on your
system. This probably even works under Windows 10, since the powershell
acts like a linux/unix shell.
Best regards,
Tim
On Tue, 7 Jul 2020 16:00:18 +
Lau Kelvin wrote:
> Ah I see! Great I can run it that way
>
Ah I see! Great I can run it that way
And yes, Eleanor, after I realized that list was gone, I was panicking that
there are some random things I used to do with those programs would no longer
be possible. Good to know that the command line versions are still there in the
7.1 distro.
Best,
Kel
yes Eleanor is right. command line still works.:-)
fft is also in 7.1 distribution.
On Tue, Jul 7, 2020 at 3:43 PM Eleanor Dodson
wrote:
> Oh Lau - how I miss that list!
> But if you just run fft online it is still distributed..wombat:Downloads
> eleanor$
>
> fft hklin mapout
>
>
Oh Lau - how I miss that list!
But if you just run fft online it is still distributed..wombat:Downloads
eleanor$
fft hklin mapout
LABIN FP= and so on..
On Tue, 7 Jul 2020 at 14:22, Christian Roth
wrote:
> Hi Kelvin,
> well fft as single program is kind of not longer supported as is
Hi Kelvin,
well fft as single program is kind of not longer supported as is not ccp4i.
In i2 internally, as well in communication with mg or coot, everything is
done using map coefficients.
Their are two options:
First via i2: Use the unusual map coefficients Task and choose not to
compare maps, bu
Hi Christian,
I was in particular looking for the fft program (I couldn’t find that using the
method you described) just to convert an mtz into a .map. Before in version 7.0
I could just browse all programs, now it seems like I cannot do that (other
than using the filter, and some seem to be mi
Hi Kelvin,
not quite sure if I understand you correctly, but if you press the Task
Manager button you get on the right sight a list of topics (import data,
Molecular Replacemnt etc.) each point can be open up like a file tree to
see all programs or pipelines available. You can search with the sear
Hello,
I am looking for a way to find the list of programs accessible using the new
7.1 CCP4I2 interface? Is this still possible or do I have to revert back to
version 7.0?
Best regards,
Kelvin
--
Kelvin Lau
https://people.epfl.ch/kelvin.lau
Protein production and structure core facility - P
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