Re: [Rdkit-discuss] Unknown CMake command "downloadAndCheckMD5"

2020-05-28 Thread Paolo Tosco 

Hi Tim,

great. For the Boost problem you could try adding

|-DBoost_NO_BOOST_CMAKE=ON|

to your cmake command; it will probably fix the problem.

Cheers,
p.

On 28/05/2020 18:01, Tim Dudgeon wrote:

Thanks Paulo. Deleting CMakeCache.txt seems to have fixed the problem.
I then hit a problem being unable to build against boost 1.71 but when 
I switched back to 1.67 it was OK.

Seems to be building fine now.
Tim

On Thu, May 28, 2020 at 5:09 PM Paolo Tosco 
mailto:paolo.tosco.m...@gmail.com>> wrote:


Hi Tim,

could you please run a pwd in your build directory? Also, could
you try deleting CMakeCache.txt and re-running cmake?

With "subdirectory" I was asking whether your build directory was
a subdirectory of the RDKit root dir or a subdirectory of
gmwrapper, because I get that error if I try to run your command
from rdkit/Code/JavaWrappers/gmwrapper/build rather than from
rdkit/build, as in that case the main CMakeLists.txt file is not
sourced.

Cheers,
p.

On 28/05/2020 17:01, Tim Dudgeon wrote:

well, I am running it from a subdirectory - the
build subdirectory which is where it has always been run from.
e.g.

mkdir build
cd build
cmake -DPYTHON_EXECUTABLE=/usr/bin/python3
 -DRDK_BUILD_INCHI_SUPPORT=ON  -DRDK_BUILD_AVALON_SUPPORT=ON
 -DRDK_BUILD_PYTHON_WRAPPERS=ON  -DRDK_BUILD_SWIG_WRAPPERS=ON ..



Tim

On Thu, May 28, 2020 at 4:46 PM Paolo Tosco
mailto:paolo.tosco.m...@gmail.com>>
wrote:

Hi Tim,

downloadAndCheckMD5 is a function defined in
Code/cmake/Modules/RDKitUtils.cmake, which is included by the
main CMakeLists.txt file and then is available to all
children CMakeLists.txt files.

From the line number where the error occurs

$ grep -n downloadAndCheckMD5 `find . -name CMakeLists.txt`
./Code/JavaWrappers/gmwrapper/CMakeLists.txt:21:
downloadAndCheckMD5(${JUNIT_URL}
"${RDKit_JavaLibDir}/junit.jar" ${JUNIT_MD5SUM})

it looks like you might be running cmake in a subdirectory
rather than in the RDKit root directory.

HTH, cheers
p.

On 28/05/2020 16:28, Tim Dudgeon wrote:

I'm not able to build form source (master branch) from a new
machine I've recently set up (Ubuntu 20.04).

$ cmake  -DPYTHON_EXECUTABLE=/usr/bin/python3
 -DRDK_BUILD_INCHI_SUPPORT=ON  -DRDK_BUILD_AVALON_SUPPORT=ON
 -DRDK_BUILD_PYTHON_WRAPPERS=ON
 -DRDK_BUILD_SWIG_WRAPPERS=ON  ..
CMake Error at CMakeLists.txt:21 (downloadAndCheckMD5):
  Unknown CMake command "downloadAndCheckMD5".


-- Configuring incomplete, errors occurred!
See also
"/home/timbo/github/rdkit/rdkit_2020_03/CMakeFiles/CMakeOutput.log".

$ cmake --version
cmake version 3.16.3
Has anything changed with cmake recently?

Tim


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Re: [Rdkit-discuss] Unknown CMake command "downloadAndCheckMD5"

2020-05-28 Thread Tim Dudgeon 
Thanks Paulo. Deleting CMakeCache.txt seems to have fixed the problem.
I then hit a problem being unable to build against boost 1.71 but when I
switched back to 1.67 it was OK.
Seems to be building fine now.
Tim

On Thu, May 28, 2020 at 5:09 PM Paolo Tosco 
wrote:

> Hi Tim,
>
> could you please run a pwd in your build directory? Also, could you try
> deleting CMakeCache.txt and re-running cmake?
>
> With "subdirectory" I was asking whether your build directory was a
> subdirectory of the RDKit root dir or a subdirectory of gmwrapper,
> because I get that error if I try to run your command from
> rdkit/Code/JavaWrappers/gmwrapper/build rather than from rdkit/build, as
> in that case the main CMakeLists.txt file is not sourced.
>
> Cheers,
> p.
> On 28/05/2020 17:01, Tim Dudgeon wrote:
>
> well, I am running it from a subdirectory - the build subdirectory which
> is where it has always been run from.
> e.g.
>
> mkdir build
> cd build
> cmake -DPYTHON_EXECUTABLE=/usr/bin/python3  -DRDK_BUILD_INCHI_SUPPORT=ON
>  -DRDK_BUILD_AVALON_SUPPORT=ON  -DRDK_BUILD_PYTHON_WRAPPERS=ON
>  -DRDK_BUILD_SWIG_WRAPPERS=ON ..
>
>
>
> Tim
>
> On Thu, May 28, 2020 at 4:46 PM Paolo Tosco 
> wrote:
>
>> Hi Tim,
>>
>> downloadAndCheckMD5 is a function defined in
>> Code/cmake/Modules/RDKitUtils.cmake, which is included by the main
>> CMakeLists.txt file and then is available to all children CMakeLists.txt
>> files.
>>
>> From the line number where the error occurs
>>
>> $ grep -n downloadAndCheckMD5 `find . -name CMakeLists.txt`
>> ./Code/JavaWrappers/gmwrapper/CMakeLists.txt:21:
>> downloadAndCheckMD5(${JUNIT_URL} "${RDKit_JavaLibDir}/junit.jar"
>> ${JUNIT_MD5SUM})
>> it looks like you might be running cmake in a subdirectory rather than
>> in the RDKit root directory.
>>
>> HTH, cheers
>> p.
>>
>> On 28/05/2020 16:28, Tim Dudgeon wrote:
>>
>> I'm not able to build form source (master branch) from a new machine I've
>> recently set up (Ubuntu 20.04).
>>
>> $ cmake  -DPYTHON_EXECUTABLE=/usr/bin/python3
>>  -DRDK_BUILD_INCHI_SUPPORT=ON  -DRDK_BUILD_AVALON_SUPPORT=ON
>>  -DRDK_BUILD_PYTHON_WRAPPERS=ON  -DRDK_BUILD_SWIG_WRAPPERS=ON  ..
>> CMake Error at CMakeLists.txt:21 (downloadAndCheckMD5):
>>   Unknown CMake command "downloadAndCheckMD5".
>>
>>
>> -- Configuring incomplete, errors occurred!
>> See also
>> "/home/timbo/github/rdkit/rdkit_2020_03/CMakeFiles/CMakeOutput.log".
>>
>> $ cmake --version
>> cmake version 3.16.3
>>
>> Has anything changed with cmake recently?
>>
>> Tim
>>
>>
>> ___
>> Rdkit-discuss mailing 
>> listRdkit-discuss@lists.sourceforge.nethttps://lists.sourceforge.net/lists/listinfo/rdkit-discuss
>>
>>
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Re: [Rdkit-discuss] Unknown CMake command "downloadAndCheckMD5"

2020-05-28 Thread Paolo Tosco 

Hi Tim,

could you please run a pwd in your build directory? Also, could you try 
deleting CMakeCache.txt and re-running cmake?


With "subdirectory" I was asking whether your build directory was a 
subdirectory of the RDKit root dir or a subdirectory of gmwrapper, 
because I get that error if I try to run your command from 
rdkit/Code/JavaWrappers/gmwrapper/build rather than from rdkit/build, as 
in that case the main CMakeLists.txt file is not sourced.


Cheers,
p.

On 28/05/2020 17:01, Tim Dudgeon wrote:
well, I am running it from a subdirectory - the build subdirectory 
which is where it has always been run from.

e.g.

mkdir build
cd build
cmake -DPYTHON_EXECUTABLE=/usr/bin/python3 
 -DRDK_BUILD_INCHI_SUPPORT=ON  -DRDK_BUILD_AVALON_SUPPORT=ON 
 -DRDK_BUILD_PYTHON_WRAPPERS=ON  -DRDK_BUILD_SWIG_WRAPPERS=ON ..




Tim

On Thu, May 28, 2020 at 4:46 PM Paolo Tosco 
mailto:paolo.tosco.m...@gmail.com>> wrote:


Hi Tim,

downloadAndCheckMD5 is a function defined in
Code/cmake/Modules/RDKitUtils.cmake, which is included by the main
CMakeLists.txt file and then is available to all children
CMakeLists.txt files.

From the line number where the error occurs

$ grep -n downloadAndCheckMD5 `find . -name CMakeLists.txt`
./Code/JavaWrappers/gmwrapper/CMakeLists.txt:21:
downloadAndCheckMD5(${JUNIT_URL} "${RDKit_JavaLibDir}/junit.jar"
${JUNIT_MD5SUM})

it looks like you might be running cmake in a subdirectory rather
than in the RDKit root directory.

HTH, cheers
p.

On 28/05/2020 16:28, Tim Dudgeon wrote:

I'm not able to build form source (master branch) from a new
machine I've recently set up (Ubuntu 20.04).

$ cmake  -DPYTHON_EXECUTABLE=/usr/bin/python3
 -DRDK_BUILD_INCHI_SUPPORT=ON  -DRDK_BUILD_AVALON_SUPPORT=ON
 -DRDK_BUILD_PYTHON_WRAPPERS=ON  -DRDK_BUILD_SWIG_WRAPPERS=ON  ..
CMake Error at CMakeLists.txt:21 (downloadAndCheckMD5):
  Unknown CMake command "downloadAndCheckMD5".


-- Configuring incomplete, errors occurred!
See also
"/home/timbo/github/rdkit/rdkit_2020_03/CMakeFiles/CMakeOutput.log".

$ cmake --version
cmake version 3.16.3
Has anything changed with cmake recently?

Tim


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Re: [Rdkit-discuss] Unknown CMake command "downloadAndCheckMD5"

2020-05-28 Thread Tim Dudgeon 
well, I am running it from a subdirectory - the build subdirectory which is
where it has always been run from.
e.g.

mkdir build
cd build
cmake -DPYTHON_EXECUTABLE=/usr/bin/python3  -DRDK_BUILD_INCHI_SUPPORT=ON
 -DRDK_BUILD_AVALON_SUPPORT=ON  -DRDK_BUILD_PYTHON_WRAPPERS=ON
 -DRDK_BUILD_SWIG_WRAPPERS=ON ..



Tim

On Thu, May 28, 2020 at 4:46 PM Paolo Tosco 
wrote:

> Hi Tim,
>
> downloadAndCheckMD5 is a function defined in
> Code/cmake/Modules/RDKitUtils.cmake, which is included by the main
> CMakeLists.txt file and then is available to all children CMakeLists.txt
> files.
>
> From the line number where the error occurs
>
> $ grep -n downloadAndCheckMD5 `find . -name CMakeLists.txt`
> ./Code/JavaWrappers/gmwrapper/CMakeLists.txt:21:
> downloadAndCheckMD5(${JUNIT_URL} "${RDKit_JavaLibDir}/junit.jar"
> ${JUNIT_MD5SUM})
> it looks like you might be running cmake in a subdirectory rather than in
> the RDKit root directory.
>
> HTH, cheers
> p.
>
> On 28/05/2020 16:28, Tim Dudgeon wrote:
>
> I'm not able to build form source (master branch) from a new machine I've
> recently set up (Ubuntu 20.04).
>
> $ cmake  -DPYTHON_EXECUTABLE=/usr/bin/python3
>  -DRDK_BUILD_INCHI_SUPPORT=ON  -DRDK_BUILD_AVALON_SUPPORT=ON
>  -DRDK_BUILD_PYTHON_WRAPPERS=ON  -DRDK_BUILD_SWIG_WRAPPERS=ON  ..
> CMake Error at CMakeLists.txt:21 (downloadAndCheckMD5):
>   Unknown CMake command "downloadAndCheckMD5".
>
>
> -- Configuring incomplete, errors occurred!
> See also
> "/home/timbo/github/rdkit/rdkit_2020_03/CMakeFiles/CMakeOutput.log".
>
> $ cmake --version
> cmake version 3.16.3
>
> Has anything changed with cmake recently?
>
> Tim
>
>
> ___
> Rdkit-discuss mailing 
> listRdkit-discuss@lists.sourceforge.nethttps://lists.sourceforge.net/lists/listinfo/rdkit-discuss
>
>
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Re: [Rdkit-discuss] Unknown CMake command "downloadAndCheckMD5"

2020-05-28 Thread Paolo Tosco 

Hi Tim,

downloadAndCheckMD5 is a function defined in 
Code/cmake/Modules/RDKitUtils.cmake, which is included by the main 
CMakeLists.txt file and then is available to all children CMakeLists.txt 
files.


From the line number where the error occurs

$ grep -n downloadAndCheckMD5 `find . -name CMakeLists.txt`
./Code/JavaWrappers/gmwrapper/CMakeLists.txt:21: 
downloadAndCheckMD5(${JUNIT_URL} "${RDKit_JavaLibDir}/junit.jar" 
${JUNIT_MD5SUM})


it looks like you might be running cmake in a subdirectory rather than 
in the RDKit root directory.


HTH, cheers
p.

On 28/05/2020 16:28, Tim Dudgeon wrote:
I'm not able to build form source (master branch) from a new machine 
I've recently set up (Ubuntu 20.04).


$ cmake  -DPYTHON_EXECUTABLE=/usr/bin/python3 
 -DRDK_BUILD_INCHI_SUPPORT=ON  -DRDK_BUILD_AVALON_SUPPORT=ON 
 -DRDK_BUILD_PYTHON_WRAPPERS=ON  -DRDK_BUILD_SWIG_WRAPPERS=ON  ..

CMake Error at CMakeLists.txt:21 (downloadAndCheckMD5):
  Unknown CMake command "downloadAndCheckMD5".


-- Configuring incomplete, errors occurred!
See also 
"/home/timbo/github/rdkit/rdkit_2020_03/CMakeFiles/CMakeOutput.log".


$ cmake --version
cmake version 3.16.3
Has anything changed with cmake recently?

Tim


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[Rdkit-discuss] Unknown CMake command "downloadAndCheckMD5"

2020-05-28 Thread Tim Dudgeon 
I'm not able to build form source (master branch) from a new machine I've
recently set up (Ubuntu 20.04).

$ cmake  -DPYTHON_EXECUTABLE=/usr/bin/python3  -DRDK_BUILD_INCHI_SUPPORT=ON
 -DRDK_BUILD_AVALON_SUPPORT=ON  -DRDK_BUILD_PYTHON_WRAPPERS=ON
 -DRDK_BUILD_SWIG_WRAPPERS=ON  ..
CMake Error at CMakeLists.txt:21 (downloadAndCheckMD5):
  Unknown CMake command "downloadAndCheckMD5".


-- Configuring incomplete, errors occurred!
See also
"/home/timbo/github/rdkit/rdkit_2020_03/CMakeFiles/CMakeOutput.log".

$ cmake --version
cmake version 3.16.3

Has anything changed with cmake recently?

Tim
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