Re: [deal.II] Unable to refresh spack module

2023-05-12 Thread Daniel Arndt 
> Can you tell me how can I let spack know about the package that is
installed through system installation?

Have a look at
https://spack.readthedocs.io/en/latest/build_settings.html#external-packages
.

I don't know about the other spack issue.

Best,
Daniel

On Fri, May 12, 2023 at 9:32 AM Vinayak Vijay  wrote:

> Hi,
>
> Thank you for your reply. I will try it. Can you tell me how can I let
> spack know about the package that is installed through system installation?
>
> Also, can you help me with the other error that I get when I try to
> refresh the modules?
>
> ==> Error: Cannot use invalid module set default.Valid module set
> names are []
>
> Thanks again for your help.
> Vinayak
>
> On Fri, 12 May 2023 at 3:12 PM, Daniel Arndt 
> wrote:
>
>> Yes, our HDF5 integration only works well with a raw install (like a
>> system package manager provides) that doesn't expose CMake files.
>> https://github.com/dealii/dealii/pull/15199 offers a workaround for that
>> issue but otherwise, it's best to just use the system installation
>> obtainable through
>>
>> apt-get install libhdf5-dev
>>
>> or the like and let spack know about it.
>>
>> Best,
>> Daniel
>>
>> On Fri, May 12, 2023 at 7:55 AM 陈敏  wrote:
>>
>>> Hi, Vinayak Vijay
>>>
>>> I think installing dealii-9.4 with hdf5 using spack maybe some bug, you
>>> can turn off the hdf5 by spack install dealii@9.4.0~hdf5.
>>>
>>> Best
>>> Chen
>>>
>>> Vinayak Vijay  于2023年5月12日周五 17:23写道：
>>>
 Hello,

 In order to upgrade the version of dealii, i reinstalled the latest
 version of spack. I have been able to also install dealii using spack.
 However, when i use the command "spack module tcl refresh", i get the
 following error.

 ==> Error: Cannot use invalid module set default.Valid module set
 names are []

 If i just ignore this and perform "make run" of my code i get the
 following error:

 [ 14%] Linking CXX executable main
 /usr/bin/ld.gold: error: cannot find -lhdf5-shared
 collect2: error: ld returned 1 exit status
 make[3]: *** [CMakeFiles/main.dir/build.make:292: main] Error 1
 make[2]: *** [CMakeFiles/Makefile2:90: CMakeFiles/main.dir/all] Error 2
 make[1]: *** [CMakeFiles/Makefile2:123: CMakeFiles/run.dir/rule] Error 2
 make: *** [Makefile:137: run] Error 2

 I think these two errors are linked. Can someone point out what i
 should do now?

 Note: I was able to perfectly run dealii v9.3 befor this
 reinstallation.

 Thanks,
 Vinayak

 --
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>>> --
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>>> 
>>> .
>>>
>> --
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>> 
>> .
>>
> --
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Re: [deal.II] Unable to refresh spack module

2023-05-12 Thread Vinayak Vijay 
Hi,

Thank you for your reply. I will try it. Can you tell me how can I let
spack know about the package that is installed through system installation?

Also, can you help me with the other error that I get when I try to refresh
the modules?

==> Error: Cannot use invalid module set default.Valid module set names
are []

Thanks again for your help.
Vinayak

On Fri, 12 May 2023 at 3:12 PM, Daniel Arndt  wrote:

> Yes, our HDF5 integration only works well with a raw install (like a
> system package manager provides) that doesn't expose CMake files.
> https://github.com/dealii/dealii/pull/15199 offers a workaround for that
> issue but otherwise, it's best to just use the system installation
> obtainable through
>
> apt-get install libhdf5-dev
>
> or the like and let spack know about it.
>
> Best,
> Daniel
>
> On Fri, May 12, 2023 at 7:55 AM 陈敏  wrote:
>
>> Hi, Vinayak Vijay
>>
>> I think installing dealii-9.4 with hdf5 using spack maybe some bug, you
>> can turn off the hdf5 by spack install dealii@9.4.0~hdf5.
>>
>> Best
>> Chen
>>
>> Vinayak Vijay  于2023年5月12日周五 17:23写道：
>>
>>> Hello,
>>>
>>> In order to upgrade the version of dealii, i reinstalled the latest
>>> version of spack. I have been able to also install dealii using spack.
>>> However, when i use the command "spack module tcl refresh", i get the
>>> following error.
>>>
>>> ==> Error: Cannot use invalid module set default.Valid module set
>>> names are []
>>>
>>> If i just ignore this and perform "make run" of my code i get the
>>> following error:
>>>
>>> [ 14%] Linking CXX executable main
>>> /usr/bin/ld.gold: error: cannot find -lhdf5-shared
>>> collect2: error: ld returned 1 exit status
>>> make[3]: *** [CMakeFiles/main.dir/build.make:292: main] Error 1
>>> make[2]: *** [CMakeFiles/Makefile2:90: CMakeFiles/main.dir/all] Error 2
>>> make[1]: *** [CMakeFiles/Makefile2:123: CMakeFiles/run.dir/rule] Error 2
>>> make: *** [Makefile:137: run] Error 2
>>>
>>> I think these two errors are linked. Can someone point out what i should
>>> do now?
>>>
>>> Note: I was able to perfectly run dealii v9.3 befor this reinstallation.
>>>
>>> Thanks,
>>> Vinayak
>>>
>>> --
>>> The deal.II project is located at http://www.dealii.org/
>>> For mailing list/forum options, see
>>> https://groups.google.com/d/forum/dealii?hl=en
>>> ---
>>> You received this message because you are subscribed to the Google
>>> Groups "deal.II User Group" group.
>>> To unsubscribe from this group and stop receiving emails from it, send
>>> an email to dealii+unsubscr...@googlegroups.com.
>>> To view this discussion on the web visit
>>> https://groups.google.com/d/msgid/dealii/4a585a05-c8e1-45aa-972d-d01caaaebed2n%40googlegroups.com
>>> 
>>> .
>>>
>> --
>> The deal.II project is located at http://www.dealii.org/
>> For mailing list/forum options, see
>> https://groups.google.com/d/forum/dealii?hl=en
>> ---
>> You received this message because you are subscribed to the Google Groups
>> "deal.II User Group" group.
>> To unsubscribe from this group and stop receiving emails from it, send an
>> email to dealii+unsubscr...@googlegroups.com.
>>
> To view this discussion on the web visit
>> https://groups.google.com/d/msgid/dealii/CADr3OdKdm-HCp-ZpEwWx8u%2BxHDmprrKvt3VTAzOkVs7C-s9d%2Bg%40mail.gmail.com
>> 
>> .
>>
> --
> The deal.II project is located at http://www.dealii.org/
> For mailing list/forum options, see
> https://groups.google.com/d/forum/dealii?hl=en
> ---
> You received this message because you are subscribed to a topic in the
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> To unsubscribe from this group and all its topics, send an email to
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> 
> .
>

-- 
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Re: [deal.II] Unable to refresh spack module

2023-05-12 Thread Daniel Arndt 
Yes, our HDF5 integration only works well with a raw install (like a system
package manager provides) that doesn't expose CMake files.
https://github.com/dealii/dealii/pull/15199 offers a workaround for that
issue but otherwise, it's best to just use the system installation
obtainable through

apt-get install libhdf5-dev

or the like and let spack know about it.

Best,
Daniel

On Fri, May 12, 2023 at 7:55 AM 陈敏  wrote:

> Hi, Vinayak Vijay
>
> I think installing dealii-9.4 with hdf5 using spack maybe some bug, you
> can turn off the hdf5 by spack install dealii@9.4.0~hdf5.
>
> Best
> Chen
>
> Vinayak Vijay  于2023年5月12日周五 17:23写道：
>
>> Hello,
>>
>> In order to upgrade the version of dealii, i reinstalled the latest
>> version of spack. I have been able to also install dealii using spack.
>> However, when i use the command "spack module tcl refresh", i get the
>> following error.
>>
>> ==> Error: Cannot use invalid module set default.Valid module set
>> names are []
>>
>> If i just ignore this and perform "make run" of my code i get the
>> following error:
>>
>> [ 14%] Linking CXX executable main
>> /usr/bin/ld.gold: error: cannot find -lhdf5-shared
>> collect2: error: ld returned 1 exit status
>> make[3]: *** [CMakeFiles/main.dir/build.make:292: main] Error 1
>> make[2]: *** [CMakeFiles/Makefile2:90: CMakeFiles/main.dir/all] Error 2
>> make[1]: *** [CMakeFiles/Makefile2:123: CMakeFiles/run.dir/rule] Error 2
>> make: *** [Makefile:137: run] Error 2
>>
>> I think these two errors are linked. Can someone point out what i should
>> do now?
>>
>> Note: I was able to perfectly run dealii v9.3 befor this reinstallation.
>>
>> Thanks,
>> Vinayak
>>
>> --
>> The deal.II project is located at http://www.dealii.org/
>> For mailing list/forum options, see
>> https://groups.google.com/d/forum/dealii?hl=en
>> ---
>> You received this message because you are subscribed to the Google Groups
>> "deal.II User Group" group.
>> To unsubscribe from this group and stop receiving emails from it, send an
>> email to dealii+unsubscr...@googlegroups.com.
>> To view this discussion on the web visit
>> https://groups.google.com/d/msgid/dealii/4a585a05-c8e1-45aa-972d-d01caaaebed2n%40googlegroups.com
>> 
>> .
>>
> --
> The deal.II project is located at http://www.dealii.org/
> For mailing list/forum options, see
> https://groups.google.com/d/forum/dealii?hl=en
> ---
> You received this message because you are subscribed to the Google Groups
> "deal.II User Group" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to dealii+unsubscr...@googlegroups.com.
> To view this discussion on the web visit
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> 
> .
>

-- 
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Re: [deal.II] Unable to refresh spack module

2023-05-12 Thread 陈敏 
Hi, Vinayak Vijay

I think installing dealii-9.4 with hdf5 using spack maybe some bug, you can
turn off the hdf5 by spack install dealii@9.4.0~hdf5.

Best
Chen

Vinayak Vijay  于2023年5月12日周五 17:23写道：

> Hello,
>
> In order to upgrade the version of dealii, i reinstalled the latest
> version of spack. I have been able to also install dealii using spack.
> However, when i use the command "spack module tcl refresh", i get the
> following error.
>
> ==> Error: Cannot use invalid module set default.Valid module set
> names are []
>
> If i just ignore this and perform "make run" of my code i get the
> following error:
>
> [ 14%] Linking CXX executable main
> /usr/bin/ld.gold: error: cannot find -lhdf5-shared
> collect2: error: ld returned 1 exit status
> make[3]: *** [CMakeFiles/main.dir/build.make:292: main] Error 1
> make[2]: *** [CMakeFiles/Makefile2:90: CMakeFiles/main.dir/all] Error 2
> make[1]: *** [CMakeFiles/Makefile2:123: CMakeFiles/run.dir/rule] Error 2
> make: *** [Makefile:137: run] Error 2
>
> I think these two errors are linked. Can someone point out what i should
> do now?
>
> Note: I was able to perfectly run dealii v9.3 befor this reinstallation.
>
> Thanks,
> Vinayak
>
> --
> The deal.II project is located at http://www.dealii.org/
> For mailing list/forum options, see
> https://groups.google.com/d/forum/dealii?hl=en
> ---
> You received this message because you are subscribed to the Google Groups
> "deal.II User Group" group.
> To unsubscribe from this group and stop receiving emails from it, send an
> email to dealii+unsubscr...@googlegroups.com.
> To view this discussion on the web visit
> https://groups.google.com/d/msgid/dealii/4a585a05-c8e1-45aa-972d-d01caaaebed2n%40googlegroups.com
> 
> .
>

-- 
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[deal.II] Unable to refresh spack module

2023-05-12 Thread Vinayak Vijay 
Hello,

In order to upgrade the version of dealii, i reinstalled the latest version 
of spack. I have been able to also install dealii using spack. However, 
when i use the command "spack module tcl refresh", i get the following 
error.

==> Error: Cannot use invalid module set default.Valid module set names 
are []

If i just ignore this and perform "make run" of my code i get the following 
error:

[ 14%] Linking CXX executable main
/usr/bin/ld.gold: error: cannot find -lhdf5-shared
collect2: error: ld returned 1 exit status
make[3]: *** [CMakeFiles/main.dir/build.make:292: main] Error 1
make[2]: *** [CMakeFiles/Makefile2:90: CMakeFiles/main.dir/all] Error 2
make[1]: *** [CMakeFiles/Makefile2:123: CMakeFiles/run.dir/rule] Error 2
make: *** [Makefile:137: run] Error 2

I think these two errors are linked. Can someone point out what i should do 
now?

Note: I was able to perfectly run dealii v9.3 befor this reinstallation. 

Thanks,
Vinayak

-- 
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