Error building Sage 9.6 due to openssl

[Max Kölbl]

Hello everyone!

While running the 'make' command in cygwin on my Windows 8 laptop, I received the following output.

[openssl-3.0.4] ************************************************************************

[openssl-3.0.4] Error installing package openssl-3.0.4
[openssl-3.0.4] ************************************************************************
[openssl-3.0.4] Please email sage-devel (http://groups.google.com/group/sage-devel)
[openssl-3.0.4] explaining the problem and including the log files
[openssl-3.0.4]   /home/Ray/sage/sage/logs/pkgs/openssl-3.0.4.log
[openssl-3.0.4] and
[openssl-3.0.4]   /home/Ray/sage/sage/config.log
[openssl-3.0.4] Describe your computer, operating system, etc.
[openssl-3.0.4] If you want to try to fix the problem yourself, *don't* just cd to
[openssl-3.0.4] /home/Ray/sage/sage/local/var/tmp/sage/build/openssl-3.0.4 and type 'make' or whatever is appropriate.
[openssl-3.0.4] Instead, the following commands setup all environment variables
[openssl-3.0.4] correctly and load a subshell for you to debug the error:
[openssl-3.0.4]   (cd '/home/Ray/sage/sage/local/var/tmp/sage/build/openssl-3.0.4' && '/home/Ray/sage/sage/sage' --buildsh)
[openssl-3.0.4] When you are done debugging, you can type "exit" to leave the subshell.
[openssl-3.0.4] ************************************************************************
make[4]: *** [Makefile:2858: openssl-SAGE_LOCAL-no-deps] Error 1
make[3]: *** [Makefile:2858: /home/Ray/sage/sage/local/var/lib/sage/installed/openssl-3.0.4] Error 2
make[2]: *** [Makefile:2562: all-start] Error 2
make[2]: Leaving directory '/home/Ray/sage/sage/build/make'

real    346m50.600s
user    35m57.071s
sys     30m16.874s
***************************************************************
Error building Sage.

The following package(s) may have failed to build (not necessarily
during this run of 'make all-start'):

* package:         openssl-3.0.4
  last build time: Jul 19 17:04
  log file:        /home/Ray/sage/sage/logs/pkgs/openssl-3.0.4.log
  build directory: /home/Ray/sage/sage/local/var/tmp/sage/build/openssl-3.0.4

It is safe to delete any log files and build directories, but they
contain information that is helpful for debugging build problems.
WARNING: If you now run 'make' again, the build directory of the
same version of the package will, by default, be deleted. Set the
environment variable SAGE_KEEP_BUILT_SPKGS=yes to prevent this.

make[1]: *** [Makefile:40: all-start] Error 1
make[1]: Leaving directory '/home/Ray/sage/sage'

make: *** [Makefile:13: all] Error 2

Attached, you will find the logfile.

Thank you very much in advance!

Max

[Matthias Koeppe]

"configure" should have printed advice on what system packages to install. See config.log

[Max Kölbl]

Thank you very much for your advice!

I looked at config.log, ran the commands recommended there.

Apparently it had not worked properly before (which I didn't realise).

I ran "configure" again and now I get "exit 0".

So I ran "make" again, but the failed version of openssl is still there.

Could you please help me fix it?

I attached the config.log in case it is useful.

The openssl-log has not changed.

Thank you very much in advance!

Max

[Samuel Lelievre]

You could try this:

```

make openssl-clean openssl-uninstall

make configure

./configure

make

```

[Max Kölbl]

Thanks! I gave it a shot but unfortunately it still didn't work.

However, the reasons are strange because now python3 seems to be the culprit.

Perhaps relevant: I installed openssl via apt-cyg and it seems like 'make' is not trying to build openssl anymore.

Perhaps also relevant: python3 is installed on my machine, but it's Python 3.9.10 whereas Sage seems to require Python 3.10.5. But cygwin doesn't seem to have it: https://cygwin.com/packages/summary/python3.html

I attached the config log and the python log.

Once again, thank you very much in advance!

[Matthias Koeppe]

On Sunday, July 24, 2022 at 10:01:08 AM UTC-7 max.w....@gmail.com wrote:

Thanks! I gave it a shot but unfortunately it still didn't work.

However, the reasons are strange because now python3 seems to be the culprit.

Perhaps relevant: I installed openssl via apt-cyg and it seems like 'make' is not trying to build openssl anymore.

Perhaps also relevant: python3 is installed on my machine, but it's Python 3.9.10 whereas Sage seems to require Python 3.10.5.

No, Sage accepts any system Python >= 3.8. 

 

But cygwin doesn't seem to have it: https://cygwin.com/packages/summary/python3.html

I attached the config log and the python log.

In your config.log one can see that system python3 is not rejected because of a version check:

## -------------------------------------------------------- ## 

## Checking whether SageMath should install SPKG python3... ## 

## -------------------------------------------------------- ## 

configure:34869: checking whether any of bzip2 liblzma libffi is installed as or will be installed as SPKG 

configure:34874: result: yes; install python3 as well 

configure:36263: no suitable system package found for SPKG python3

[Max Kölbl]

Thank you very much for your reply!

> No, Sage accepts any system Python >= 3.8.

Okay, that's good to know.

> In your config.log one can see that system python3 is not rejected because of a version check:

> ## -------------------------------------------------------- ## 

> ## Checking whether SageMath should install SPKG python3... ## 

> ## -------------------------------------------------------- ## 

> configure:34869: checking whether any of bzip2 liblzma libffi is installed as or will be installed as SPKG 

> configure:34874: result: yes; install python3 as well 

> configure:36263: no suitable system package found for SPKG python3

I see. Does that mean that the install script can't find my python3?

Is there any path variable that I should change? If not, how do I find out what's broken?

I apologise in advance if these questions are naive; I'm quite new new all this.

Thanks very much in advance!

[Dima Pasechnik]

On Mon, Jul 25, 2022 at 12:49 AM Max Kölbl <max.w....@gmail.com> wrote:
>
> Thank you very much for your reply!
>
> > No, Sage accepts any system Python >= 3.8.
>
> Okay, that's good to know.
>
> > In your config.log one can see that system python3 is not rejected because of a version check:
> > ## -------------------------------------------------------- ##
> > ## Checking whether SageMath should install SPKG python3... ##
> > ## -------------------------------------------------------- ##
> > configure:34869: checking whether any of bzip2 liblzma libffi is installed as or will be installed as SPKG
> > configure:34874: result: yes; install python3 as well
> > configure:36263: no suitable system package found for SPKG python3
>
> I see. Does that mean that the install script can't find my python3?

no, read what it says:
configure:34869: checking whether any of bzip2 liblzma libffi is
installed as or will be installed as SPKG
configure:34874: result: yes; install python3 as well

it says that one of the the Cygwin packages: bzip2, or liblzma, or
libffi is not installed, and
this is the reason that the system Python3 cannot be used.

You need to install bzip2 liblzma libffi
and try running ./configure again

> Is there any path variable that I should change? If not, how do I find out what's broken?
> I apologise in advance if these questions are naive; I'm quite new new all this.
>
> Thanks very much in advance!
>
> Matthias Koeppe schrieb am Montag, 25. Juli 2022 um 02:34:53 UTC+9:
>>
>> On Sunday, July 24, 2022 at 10:01:08 AM UTC-7 max.w....@gmail.com wrote:
>>>
>>> Thanks! I gave it a shot but unfortunately it still didn't work.
>>>
>>> However, the reasons are strange because now python3 seems to be the culprit.
>>> Perhaps relevant: I installed openssl via apt-cyg and it seems like 'make' is not trying to build openssl anymore.
>>> Perhaps also relevant: python3 is installed on my machine, but it's Python 3.9.10 whereas Sage seems to require Python 3.10.5.
>>
>>
>> No, Sage accepts any system Python >= 3.8.
>>
>>>
>>> But cygwin doesn't seem to have it: https://cygwin.com/packages/summary/python3.html
>>>
>>> I attached the config log and the python log.
>>
>>
>> In your config.log one can see that system python3 is not rejected because of a version check:
>> ## -------------------------------------------------------- ##
>> ## Checking whether SageMath should install SPKG python3... ##
>> ## -------------------------------------------------------- ##
>> configure:34869: checking whether any of bzip2 liblzma libffi is installed as or will be installed as SPKG
>> configure:34874: result: yes; install python3 as well
>> configure:36263: no suitable system package found for SPKG python3
>>
>>
>>

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[Samuel Lelievre]

Install the relevant cygwin packages:

```

$ apt-cyg install bzip2 libbz2-devel liblzma-devel libffi-devel xz

```

Clean up the corresponding Sage packages:

```

$ make bzip2-clean liblzma-clean libffi-clean xz-clean

Then configure again:

```

$ make configure

$ ./configure

```

Follow any recommendations at end of configure output.

Finally decide number of parallel jobs

```

$ export MAKE='make -j8'

```

and run make again:

```

$ make -s V=0

```

[Max Kölbl]

Thank you very much for your help!

That helped. Sage is now *almost* completely installed.

However, now a different problem appeared.

While installing the docs, the following error occured:

>[reference] /home/Ray/sage/sage/src/doc/en/reference/index.rst:34: WARNING: unknown document: categories/index
>[reference] /home/Ray/sage/sage/src/doc/en/reference/index.rst:76: WARNING: unknown document: groups/index
>[reference] /home/Ray/sage/sage/src/doc/en/reference/index.rst:79: WARNING: unknown document: algebras/index
>[reference] /home/Ray/sage/sage/src/doc/en/reference/index.rst:84: WARNING: unknown document: combinat/index
>[reference] /home/Ray/sage/sage/src/doc/en/reference/index.rst:85: WARNING: unknown document: graphs/index
>[reference] /home/Ray/sage/sage/src/doc/en/reference/index.rst:89: WARNING: unknown document: coding/index
>[reference] /home/Ray/sage/sage/src/doc/en/reference/index.rst:105: WARNING: unknown document: knots/index
>[reference] /home/Ray/sage/sage/src/doc/en/reference/index.rst:157: WARNING: unknown document: libs/index
>[reference] The inventory files are in ../../local/share/doc/sage/inventory/en/reference.
>Error building the documentation.
>Traceback (most recent call last):
>  File "/usr/lib/python3.9/runpy.py", line 197, in _run_module_as_main
>    return _run_code(code, main_globals, None,
>  File "/usr/lib/python3.9/runpy.py", line 87, in _run_code
>    exec(code, run_globals)
>  File "/home/Ray/sage/sage/local/var/lib/sage/venv-python3.9/lib/python3.9/site-packages/sage_docbuild/__main__.py", line 500, in <module>
>    sys.exit(main())
>  File "/home/Ray/sage/sage/local/var/lib/sage/venv-python3.9/lib/python3.9/site-packages/sage_docbuild/__main__.py", line 497, in main
>    builder()
>  File "/home/Ray/sage/sage/local/var/lib/sage/venv-python3.9/lib/python3.9/site-packages/sage_docbuild/builders.py", line 167, in f
>    runsphinx()
>  File "/home/Ray/sage/sage/local/var/lib/sage/venv-python3.9/lib/python3.9/site-packages/sage_docbuild/sphinxbuild.py", line 327, in runsphinx
>    sys.stderr.raise_errors()
>  File "/home/Ray/sage/sage/local/var/lib/sage/venv-python3.9/lib/python3.9/site-packages/sage_docbuild/sphinxbuild.py", line 263, in raise_errors
>    raise OSError(self._error)
>OSError: /home/Ray/sage/sage/src/doc/en/reference/index.rst:34: WARNING: unknown document: categories/index
>
>    Note: incremental documentation builds sometimes cause spurious
>    error messages. To be certain that these are real errors, run
>    "make doc-clean doc-uninstall" first and try again.
>make[6]: *** [Makefile:27: doc-inventory--reference_top] Error 1
>make[5]: *** [Makefile:45: doc-inventory-reference] Error 2

I tried

```

$make doc-clean doc-uninstall

$make configure

$./configure

$make -s V=0

```

and it raised the same error (log file is attached).

It appears that some of the docs are not building completely; this is a part of the log:

>[knots    ] building [inventory]: targets for 4 source files that are out of date
>[knots    ] updating environment: [new config] 4 added, 0 changed, 0 removed
>[lfunction] building [inventory]: targets for 5 source files that are out of date
>[lfunction] updating environment: [new config] 5 added, 0 changed, 0 removed
>[lfunction] The inventory files are in ../../local/share/doc/sage/inventory/en/reference/lfunctions.
>Build finished. The built documents can be found in /home/Ray/sage/sage/local/share/doc/sage/inventory/en/reference/lfunctions

And later I get this:

>[reference] /home/Ray/sage/sage/src/doc/en/reference/index.rst:105: WARNING: unknown document: knots/index

What is the best thing to do there?

It's the same packages that cause the trouble in both runs.

Thank you very much in advance!

Max

[Dima Pasechnik]

documentation building is currently broken on Cygwin.

instead of running 'make', run 'make build'.

Anyhow, you probably have mostly functional Sage installation now.

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[Max Kölbl]

Ah okay, that's good to know. I probably won't need that feature in the near future anyway.

But thank you; I ran `make build` and finally the process terminated without a fatal error.

I also ran it and it works fine now.