I have not yet tried to CMAKE install the latest amber version on the latest ubuntu version so this is mostly based on guessing.
First, check that you have installed all the prerequisites as instructed: http://ambermd.org/InstUbuntu.php
Second, check the hash and do a clean extraction from the downloaded archive file to make sure it is not damaged.
Third, make sure you have full read/write permissions in the folder you are trying to compile in and if possible let amber fetch and install dependencies using miniconda.
Give it another try “from scratch” and see of that resolves the issue.
// Gustaf
> On 22 Sep 2020, at 09:11, Nisha Amarnath Jonniya <phd1601271002.iiti.ac.in> wrote:
>
> I am using ubuntu 20.04.1 , 64-bit and a gnu compiler.
>
> On Tue, Sep 22, 2020 at 12:37 PM Gustaf Olsson <gustaf.olsson.lnu.se> wrote:
>
>> Try re-running configure with the '--disable-dependency-tracking' option
>>
>> Which OS are you trying to compile on?
>> What is your configuration? Are you using cc/fortran compilers and the
>> amber miniconda setup?
>>
>> // Gustaf
>>
>>> On 22 Sep 2020, at 08:59, Nisha Amarnath Jonniya <
>> phd1601271002.iiti.ac.in> wrote:
>>>
>>> *This is the content of the log file:*
>>>
>>> config.status: error: in
>>> `/home/nisha/software/amber/amber18/AmberTools/src/netcdf-4.6.1':
>>> config.status: error: Something went wrong bootstrapping makefile
>> fragments
>>> for automatic dependency tracking. Try re-running configure with the
>>> '--disable-dependency-tracking' option to at least be able to build
>>> the package (albeit without support for automatic dependency
>> tracking).
>>>
>>>
>>> On Tue, Sep 22, 2020 at 12:26 PM Gustaf Olsson <gustaf.olsson.lnu.se>
>> wrote:
>>>
>>>> What does the content of the log file say?
>>>>
>>>> /home/nisha/software/amber/amber18/AmberTools/src/netcdf_config.log
>>>>
>>>> // Gustaf
>>>>
>>>>> On 22 Sep 2020, at 07:22, Nisha Amarnath Jonniya <
>>>> phd1601271002.iiti.ac.in> wrote:
>>>>>
>>>>> Dear Amber Users,
>>>>>
>>>>> I am trying to install amber18 and encountered the following error.
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>>
>>>>> *-- Checking NetCDF... Using bundled NetCDF library. Starting NetCDF
>>>> build.
>>>>> Configuring NetCDF C interface (may be time-consuming)...Error: NetCDF
>> C
>>>>> configure returned 1 NetCDF configure failed! Check the
>>>>> netcdf_config.log file in the
>>>>> /home/nisha/software/amber/amber18/AmberTools/src directory.Configure
>>>>> failed due to the errors above!*
>>>>>
>>>>> Any suggestions and help would be appreciated.
>>>>>
>>>>> Thanks and regards
>>>>>
>>>>>
>>>>> Nisha Amarnath Jonniya
>>>>> PhD Research Scholar
>>>>> Biosciences and Biomedical Engineering
>>>>> Indian Institute of Technology, Indore
>>>>> India
>>>>> _______________________________________________
>>>>> AMBER mailing list
>>>>> AMBER.ambermd.org
>>>>> http://lists.ambermd.org/mailman/listinfo/amber
>>>>
>>>>
>>>> _______________________________________________
>>>> AMBER mailing list
>>>> AMBER.ambermd.org
>>>> http://lists.ambermd.org/mailman/listinfo/amber
>>>>
>>>
>>>
>>> --
>>>
>>> Nisha Amarnath Jonniya
>>> PhD Research Scholar
>>> Biosciences and Biomedical Engineering
>>> Indian Institute of Technology, Indore
>>> India
>>> _______________________________________________
>>> AMBER mailing list
>>> AMBER.ambermd.org
>>> http://lists.ambermd.org/mailman/listinfo/amber
>>
>>
>> _______________________________________________
>> AMBER mailing list
>> AMBER.ambermd.org
>> http://lists.ambermd.org/mailman/listinfo/amber
>>
>
>
> --
>
> Nisha Amarnath Jonniya
> PhD Research Scholar
> Biosciences and Biomedical Engineering
> Indian Institute of Technology, Indore
> India
> _______________________________________________
> AMBER mailing list
> AMBER.ambermd.org
> http://lists.ambermd.org/mailman/listinfo/amber
_______________________________________________
AMBER mailing list
AMBER.ambermd.org
http://lists.ambermd.org/mailman/listinfo/amber
Received on Tue Sep 22 2020 - 01:00:02 PDT
