[petsc-dev] download problem p4est on Cori at NERSC

[Tobin Isaac]

The bootstrap script predates/supercedes  autoreconf to get the necessary m4 scripts and write configure.  The tarballs have the m4 scripts and configure, so they should be treated as standard gnu configure && make && make install scripts.  I think that's what I accomplished in p4est.py.  I'm on my phone, when I'm at a computer I'll look at this thread's history to see if I can figure out what's going on.

On February 16, 2017 4:34:35 PM CST, Barry Smith <bsmith at mcs.anl.gov> wrote:
>
>The best long term fix is to find out what things p4est needs to
>determine by a running a program and providing them some other way.
>
>  Toby
>
>   So what things is p4est trying to determine by running a program?
>
>  Barry
>
>
>
>> On Feb 16, 2017, at 3:25 PM, Satish Balay <balay at mcs.anl.gov> wrote:
>> 
>> I don't understand autoconf well enough for cross compiling. Some
>> packages appear to require this - but others don't.
>> 
>>
>https://www.gnu.org/software/autoconf/manual/autoconf-2.69/html_node/Hosts-and-Cross_002dCompilation.html
>> 
>> So one would run 'config.guess' script on the compute node - and use
>this value on the compile node with configure?
>> 
>> I don't know how we could automate that..
>> 
>> Satish
>> 
>> On Wed, 15 Feb 2017, Mark Adams wrote:
>> 
>>> OK, that did not work. It says something about --host now.
>>> 
>>> On Wed, Feb 15, 2017 at 5:06 PM, Mark Adams <mfadams at lbl.gov> wrote:
>>> 
>>>> I think this will work because I have git when I configure on a
>login node
>>>> (Haswell). I build KNL by submitting a batch script (it takes to
>long to
>>>> fit in 30 minutes of an interactive session). That fails because
>git is not
>>>> available (can I just load the module ...) on a KNL compute node.
>It is
>>>> reconfiguring now, I'll let you know if it fails.
>>>> Thanks,
>>>> 
>>>> On Wed, Feb 15, 2017 at 4:59 PM, Satish Balay <balay at mcs.anl.gov>
>wrote:
>>>> 
>>>>> Sorry - this won't work - as p4est appears to require git
>[submodules?]..
>>>>> 
>>>>>>>>>>>>>>>>> p4est.py <<<<<<<<<<<<<
>>>>>  def updateGitDir(self):
>>>>>    config.package.GNUPackage.updateGitDir(self)
>>>>>    Dir = self.getDir()
>>>>>    try:
>>>>>      libsc = self.libsc
>>>>>    except AttributeError:
>>>>>      try:
>>>>>        self.executeShellCommand([self.sourceControl.git,
>'submodule',
>>>>> 'update', '--init'], cwd=Dir, log=self.log)
>>>>>        import os
>>>>>        if os.path.isfile(os.path.join(Dir,'sc','README')):
>>>>>          self.libsc = os.path.join(Dir,'sc')
>>>>>        else:
>>>>>          raise RuntimeError
>>>>>      except RuntimeError:
>>>>>        raise RuntimeError('Could not initialize sc submodule
>needed by
>>>>> p4est')
>>>>>    return
>>>>> <<<<<<
>>>>> 
>>>>> Satish
>>>>> 
>>>>> On Wed, 15 Feb 2017, Satish Balay wrote:
>>>>> 
>>>>>> batch won't help here. its git vs tarball - and p4est curently
>doesn't
>>>>> have a taball.
>>>>>> 
>>>>>> The following should give you a tarball - if you don't have git.
>>>>>> 
>>>>>> diff --git a/config/BuildSystem/config/packages/p4est.py
>>>>> b/config/BuildSystem/config/packages/p4est.py
>>>>>> index 4735ff4..1f9507c 100644
>>>>>> --- a/config/BuildSystem/config/packages/p4est.py
>>>>>> +++ b/config/BuildSystem/config/packages/p4est.py
>>>>>> @@ -4,7 +4,7 @@ class Configure(config.package.GNUPackage):
>>>>>>   def __init__(self, framework):
>>>>>>     config.package.GNUPackage.__init__(self, framework)
>>>>>>     self.gitcommit         = 'v2.0'
>>>>>> -    self.download          = ['git://https://github.com/cbu
>>>>> rstedde/p4est']
>>>>>> +    self.download          = ['git://https://github.com/cbu
>>>>> rstedde/p4est','https://github.com/cburstedde/p4est/archive/
>>>>> '+self.gitcommit+'.tar.gz']
>>>>>>     self.functions         = ['p4est_init']
>>>>>>     self.includes          = ['p4est_bits.h']
>>>>>>     self.liblist           = [['libp4est.a', 'libsc.a']]
>>>>>> 
>>>>>> I  can push this to master.
>>>>>> 
>>>>>> Satish
>>>>>> 
>>>>>> On Wed, 15 Feb 2017, Mark Adams wrote:
>>>>>> 
>>>>>>> Oh, this is because git does not work on KNL. Maybe I should do
>>>>>>> with-batch=1,
>>>>>>> 
>>>>>>> 
>>>>>>> On Wed, Feb 15, 2017 at 4:36 PM, Mark Adams <mfadams at lbl.gov>
>wrote:
>>>>>>> 
>>>>>>>> I get this error on the KNL partition at NERSC.  P4est works on
>the
>>>>>>>> Haswell partition and other downloads seem to work on the KNL
>>>>> partition.
>>>>>>>> Any ideas?
>>>>>>>> 
>>>>>>> 
>>>>>> 
>>>>>> 
>>>>> 
>>>>> 
>>>> 
>>> 
>>