Re: grdmath problems

Marcelo Banik <[email protected]>
Newsgroups gmane.comp.gis.gmt.user
Message-ID <CAN-U1_YLFRhB=Hm=CauS7pHghYuPCeHNwxcrcJ8bGnQ-OVR6fQ@mail.gmail.com> 
I tested in an ubuntu 13.10.


 Following command pass:

~/strange_behavior$ /usr/local/GMT4.5.11/bin/grdmath 1.grd DUP DUP 10 LE
0.65 MUL EXCH DUP DUP DUP 10 GT EXCH 20 LE MUL EXCH 10 SUB 10 DIV -0.05 MUL
0.65 ADD MUL EXCH DUP DUP DUP 20 GT EXCH 30 LE MUL EXCH 20 SUB 10 DIV -0.07
MUL 0.60 ADD MUL EXCH DUP DUP DUP 30 GT EXCH 40 LE MUL EXCH 30 SUB 10 DIV
-0.08 MUL 0.53 ADD MUL EXCH 40 GT 0.45 MUL ADD ADD ADD ADD 686 2.grd DIV
EXCH POW MUL = 3.grd


 But if I did:

~/strange_behavior$ ln -s /usr/local/GMT4.5.11/bin .

~/strange_behavior$ bin/grdmath 1.grd DUP DUP 10 LE 0.65 MUL EXCH DUP DUP
DUP 10 GT EXCH 20 LE MUL EXCH 10 SUB 10 DIV -0.05 MUL 0.65 ADD MUL EXCH DUP
DUP DUP 20 GT EXCH 30 LE MUL EXCH 20 SUB 10 DIV -0.07 MUL 0.60 ADD MUL EXCH
DUP DUP DUP 30 GT EXCH 40 LE MUL EXCH 30 SUB 10 DIV -0.08 MUL 0.53 ADD MUL
EXCH 40 GT 0.45 MUL ADD ADD ADD ADD 686 2.grd DIV EXCH POW MUL = 3.grd

*** buffer overflow detected ***: bin/grdmath terminated


 And if I use full path to grdmath 4.5.12_r10185 [64-bit], it fails:

/opt/gmt/4.5.12/bin/grdmath 1.grd DUP DUP 10 LE 0.65 MUL EXCH DUP DUP DUP
10 GT EXCH 20 LE MUL EXCH 10 SUB 10 DIV -0.05 MUL 0.65 ADD MUL EXCH DUP DUP
DUP 20 GT EXCH 30 LE MUL EXCH 20 SUB 10 DIV -0.07 MUL 0.60 ADD MUL EXCH DUP
DUP DUP 30 GT EXCH 40 LE MUL EXCH 30 SUB 10 DIV -0.08 MUL 0.53 ADD MUL EXCH
40 GT 0.45 MUL ADD ADD ADD ADD 686 2.grd DIV EXCH POW MUL = 3.grd

*** buffer overflow detected ***: /opt/gmt/4.5.12/bin/grdmath terminated


 In both cases, it succeed if I use ./1.grd instead of 1.grd.


 Could someone more reproduce these results?


 Marcelo




On Thu, Jan 23, 2014 at 9:12 PM, Branden Christensen <
[email protected]> wrote:

> Paul:
>
>
> Good evening.
>
> I originally had the buffer overflow problem when I installed GMT on
> Ubuntu 12.04 using "sudo apt-get install gmt". You recommended I install
> 4.5.11 from sources which I did using the attached script
> "siposg4511-1.sh". But the problems persists.
>
> In the end I hope to be able to execute grdmath by calling the full path.
>
>
>
> *Branden Christensen*
> The Seismo Guys Blog: http://www.osop.com.pa/blog/the-seismo-guys/
> Take a Virtual Tour: http://www.osop.com.pa/tour
> Sign up for the OSOP mailing list:
> http://www.osop.com.pa/about/osop-mailing-list/
>
>
> On Wed, Jan 22, 2014 at 7:06 PM, Paul Wessel <[email protected]> wrote:
>
>> Hi Brandan-
>>
>> I think I forgot how this started.  Did you build GMT yourself or
>> installed via ubuntu package manager? We have had lots of issues with the
>> ubuntu-built GMT release but people who build it themselves have no issues.
>>  I know a ticket was opened with Ubuntu so maybe in 4 years it will be
>> addressed...  We suspect they used some unhealthy compiler flag but we do
>> not know.
>> -p
>>
>> On Jan 22, 2014, at 9:43 AM, Branden Christensen <
>> [email protected]> wrote:
>>
>> Paul:
>>
>>
>> If you guys want access to a server running 12.04 let me know.
>>
>>
>> Kind Regards,
>>
>>
>> *Branden Christensen*
>> The Seismo Guys Blog: http://www.osop.com.pa/blog/the-seismo-guys/
>> Take a Virtual Tour: http://www.osop.com.pa/tour
>> Sign up for the OSOP mailing list:
>> http://www.osop.com.pa/about/osop-mailing-list/
>>
>>
>> On Wed, Jan 22, 2014 at 7:31 PM, Paul Wessel <[email protected]> wrote:
>>
>>> No, this should be good - I just need to reproduce it in Ubuntu, or have
>>> some of our other guys try it as well (Marcelo? Eduardo?)
>>>
>>> -p
>>>
>>> On Jan 22, 2014, at 9:16 AM, Branden Christensen <
>>> [email protected]> wrote:
>>>
>>> Paul:
>>>
>>>
>>> I get this:
>>> osop@osop-displays2:~$ /usr/src/gmt-4.5.11/bin/grdmath -R0/10/0/10 -I1
>>> X = 1.grd
>>> osop@osop-displays2:~$ /usr/src/gmt-4.5.11/bin/grdmath -R0/10/0/10 -I1
>>> X = 2.grd
>>> osop@osop-displays2:~$ /usr/src/gmt-4.5.11/bin/grdmath 1.grd DUP DUP 10
>>> LE 0.65 MUL EXCH DUP DUP DUP 10 GT EXCH 20 LE MUL EXCH 10 SUB 10 DIV -0.05
>>> MUL 0.65 ADD MUL EXCH DUP DUP DUP 20 GT EXCH 30 LE MUL EXCH 20 SUB 10 DIV
>>> -0.07 MUL 0.60 ADD MUL EXCH DUP DUP DUP 30 GT EXCH 40 LE MUL EXCH 30 SUB 10
>>> DIV -0.08 MUL 0.53 ADD MUL EXCH 40 GT 0.45 MUL ADD ADD ADD ADD 686 2.grd
>>> DIV EXCH POW MUL = 3.grd
>>> *** buffer overflow detected ***: /usr/src/gmt-4.5.11/bin/grdmath
>>> terminated
>>>
>>> So will you still need the original files if these dummy files produce
>>> the same error? Please let me know!
>>>
>>>
>>> Kind Regards,
>>>
>>>
>>> *Branden Christensen*
>>> The Seismo Guys Blog: http://www.osop.com.pa/blog/the-seismo-guys/
>>> Take a Virtual Tour: http://www.osop.com.pa/tour
>>> Sign up for the OSOP mailing list:
>>> http://www.osop.com.pa/about/osop-mailing-list/
>>>
>>>
>>> On Wed, Jan 22, 2014 at 7:05 PM, Paul Wessel <[email protected]> wrote:
>>>
>>>> Hi Brandan-
>>>>
>>>> Even if the input grids dont matter I will need to create dummy ones
>>>> with the right dimensions since grdmath is reading them to detect -R -I.
>>>> If I just try
>>>>
>>>> grdmath -R0/10/0/10 -I1 X = 1.grd
>>>> grdmath -R0/10/0/10 -I1 X = 2.grd
>>>> grdmath 1.grd DUP DUP 10 LE 0.65 MUL EXCH DUP DUP DUP 10 GT EXCH 20 LE
>>>> MUL EXCH 10 SUB 10 DIV -0.05 MUL 0.65 ADD MUL EXCH DUP DUP DUP 20 GT EXCH
>>>> 30 LE MUL EXCH 20 SUB 10 DIV -0.07 MUL 0.60 ADD MUL EXCH DUP DUP DUP 30 GT
>>>> EXCH 40 LE MUL EXCH 30 SUB 10 DIV -0.08 MUL 0.53 ADD MUL EXCH 40 GT 0.45
>>>> MUL ADD ADD ADD ADD 686 2.grd DIV EXCH POW MUL = 3.grd
>>>>
>>>> I get no errors.  Let me know if the above crashes for you.  I will
>>>> then fire up Ubuntu in parallels and see what happens there.
>>>> -p
>>>>
>>>> On Jan 22, 2014, at 8:51 AM, Branden Christensen <
>>>> [email protected]> wrote:
>>>>
>>>> > Paul:
>>>> >
>>>> >
>>>> > Buenas tardes.
>>>> >
>>>> > I would like to take up this issue again.
>>>> >
>>>> > The buffer overflow is caused by grdmath on a 64-bit 12.04 LTS Ubuntu
>>>> machine running GMT 4.5.11.
>>>> >
>>>> > Here is the complete command and resulting error:
>>>> >
>>>> > /usr/src/gmt-4.5.11/bin/grdmath
>>>> /opt/shakemap2/bin/../data/9583161/richter/pgv_rock.grd DUP DUP 10 LE 0.65
>>>> MUL EXCH DUP DUP DUP 10 GT EXCH 20 LE MUL EXCH 10 SUB 10 DIV -0.05 MUL 0.65
>>>> ADD MUL EXCH DUP DUP DUP 20 GT EXCH 30 LE MUL EXCH 20 SUB 10 DIV -0.07 MUL
>>>> 0.60 ADD MUL EXCH DUP DUP DUP 30 GT EXCH 40 LE MUL EXCH 30 SUB 10 DIV -0.08
>>>> MUL 0.53 ADD MUL EXCH 40 GT 0.45 MUL ADD ADD ADD ADD 686
>>>> /opt/shakemap2/bin/../data/9583161/output/UFVS74PC0J.grd DIV EXCH POW MUL =
>>>> /opt/shakemap2/bin/../data/9583161/output/pgv.grd
>>>> > *** buffer overflow detected ***: /usr/src/gmt-4.5.11/bin/grdmath
>>>> terminated
>>>> >
>>>> > The input files do not matter. I created a new directory "tmp" and
>>>> touched 1.grd, 2.grd and 3.grd. Then:
>>>> > osop@osop-displays2:~/tmp$ /usr/src/gmt-4.5.11/bin/grdmath 1.grd DUP
>>>> DUP 10 LE 0.65 MUL EXCH DUP DUP DUP 10 GT EXCH 20 LE MUL EXCH 10 SUB 10 DIV
>>>> -0.05 MUL 0.65 ADD MUL EXCH DUP DUP DUP 20 GT EXCH 30 LE MUL EXCH 20 SUB 10
>>>> DIV -0.07 MUL 0.60 ADD MUL EXCH DUP DUP DUP 30 GT EXCH 40 LE MUL EXCH 30
>>>> SUB 10 DIV -0.08 MUL 0.53 ADD MUL EXCH 40 GT 0.45 MUL ADD ADD ADD ADD 686
>>>> 2.grd DIV EXCH POW MUL = 3.grd*** buffer overflow detected ***:
>>>> /usr/src/gmt-4.5.11/bin/grdmath terminated
>>>> >
>>>> >
>>>> > Thank you for your expertise.
>>>> >
>>>> >
>>>> > Kind Regards from Panama,
>>>> >
>>>> >
>>>> > Branden Christensen
>>>> > The Seismo Guys Blog: http://www.osop.com.pa/blog/the-seismo-guys/
>>>> > Take a Virtual Tour: http://www.osop.com.pa/tour
>>>> > Sign up for the OSOP mailing list:
>>>> http://www.osop.com.pa/about/osop-mailing-list/
>>>> >
>>>> >
>>>> > On Fri, Nov 29, 2013 at 9:32 AM, Paul Wessel <[email protected]>
>>>> wrote:
>>>> > Brendan-
>>>> >
>>>> > It would be helpful if you could save the files used to run the
>>>> grdmath command below which seems to be the first that crashes.  However,
>>>> that is clearly not the full grdmath command since there is no -R -I or
>>>> gridfile on the input side. If I am to be of any help I will need an actual
>>>> grdmath command line that crashes and all the input files that it requires
>>>> so I can try to recreate the situation here.
>>>> >
>>>> > Cheers,
>>>> > -p
>>>> >
>>>> >
>>>> >
>>>> > On Nov 28, 2013, at 5:54 PM, Branden Christensen <
>>>> [email protected]> wrote:
>>>> >
>>>> >> grdmath: (/opt/shakemap2/bin/../data/9583161/output/hwxDhIWuGY.xy)
>>>> PDIST 27.47 HYPOT = /opt/shakemap2/bin/../data/9583161/output/D7FwNIcwDT.grd
>>>> >> *** buffer overflow detected ***: /usr/lib/gmt/bin/grdmath terminated
>>>> >
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