[esp-r] Re: libxml2 on OS X

Wed Dec 4 06:50:08 GMT 2019

… as given below, you can officially re-install/add the usr/include via a package which is located also as given below (belongs to Xcode + command line tools). This works as given below for 10.13 and 10.14. Haven’t had 10.15 on a machine, yet ...

> On 3 Dec 2019, at 22:42, Jon Hand <jon at esru.strath.ac.uk> wrote:
> 
> 
> If you are using a recent version of OSX there is no /usr/include folder any more.
> However, if you are using homebrew then a stack exchange thread suggested that
> the libxml2 development files are found in /usr/local/opt/libxml2.  Indeed there seems
> to be quite a bit there so .....
> 
> Edit the Install script around line 318 to the following and the
> message about libxml2 not found goes away and the enableXML seems
> to have built the library that ESP-r needs ....
> 
> 
> # xml support.
> if [ "$xml_support" = "yes" ] || [ "$xml_support" = "prompt" ]; then
>    if [ ! -d /usr/include/libxml2 ] && [ ! -d /usr/local/include/libxml2 ] && [ ! -d /usr/local/opt/libxml2 ]; then
> 
> 
> -Jon Hand
> 
> From: esp-r-bounces at lists.strath.ac.uk <mailto:esp-r-bounces at lists.strath.ac.uk> <esp-r-bounces at lists.strath.ac.uk <mailto:esp-r-bounces at lists.strath.ac.uk>> on behalf of Achim Geissler <achim.geissler at intergga.ch <mailto:achim.geissler at intergga.ch>>
> Sent: 03 December 2019 20:24
> To: ESP-r List <esp-r at lists.strath.ac.uk <mailto:esp-r at lists.strath.ac.uk>>
> Subject: [esp-r] Re: libxml2 on OS X
>  
> Hi Christopher,
> 
> on 10.13 and 10.14 the following worked for me (kind of an extract from my “tips and tricks”):
> 
> === Check
> /usr/include/
> drwxr-xr-x    4 root  wheel      128 Oct 31 12:37 libxml2
> drwxr-xr-x   23 root  wheel      736 Oct 31 12:37 libxslt
> === missing /usr/include? (OSX 10.14)
> https://embeddedartistry.com/blog/2018/11/14/missing-usrinclude-after-updating-to-osx-1014-try-this-fix <https://embeddedartistry.com/blog/2018/11/14/missing-usrinclude-after-updating-to-osx-1014-try-this-fix>
> For legacy software that looks for the macOS headers in the base system under /usr/include, please install the package file located at: /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_macOS_10.14. pkg
> ((found by searching for "OSX 10.14 /usr/include missing"))
> === Check
> /usr/
> lrwxr-xr-x    1 root  wheel      8 Apr 26  2018 X11 -> /opt/X11
> lrwxr-xr-x    1 root  wheel      8 Apr 26  2018 X11R6 -> /opt/X11
>  
> If all X11 libraries are already installed via XQuark, then O.K., otherwise likely 
> $ sudo port install xorg-libX11
> must be run.
>  
> === Check
> /opt/X11/include
> …
> lrwxr-xr-x    1 root           wheel     18 Dec  7 16:37 freetype -> freetype2/freetype
> drwxr-xr-x    5 root           wheel    160 Dec  7 15:20 freetype2
> lrwxr-xr-x    1 root           wheel     20 Dec  7 15:27 ft2build.h -> freetype2/ft2build.h
> …
> These links are necessary for ESP-r new fonts (V13.2.8+). If not set, then (in /opt/X11/include) do
>  
> $ sudo ln -sf freetype2/freetype freetype
> and
> $ sudo ln -sf freetype2/ft2build.h ft2build.h
> Both symlinks seem necessary!
> The path to /opt/esp-r/bin must be set (ideally both in .bashrc and .bash_profile)
> ===============
> 
> Best
> Achim
> 
> 
>> On 2 Dec 2019, at 22:38, Christopher Heard <cheard at prodigy.net.mx <mailto:cheard at prodigy.net.mx>> wrote:
>> 
>> Hello all,
>>              on using the Install option —xml I get the following
>> 
>>  Error: libxml2 library not found in /usr/include
>>  or /usr/local/include. Support for xml output will be
>>  disabled but the rest of the installation will
>>  proceed normally.
>> 
>> I have found the libxml2-2.9.1 folder in Macintosh HD⁩ ▸ ⁨opt⁩ ▸ ⁨local⁩ ▸ ⁨share⁩ ▸ ⁨doc⁩ and copied it to /usr/local/include but the installer still gives the same error message.
>> 
>> If I rename the copy to simply libxml2, will this work or do I need to use an earlier version?
>> 
>> At least on re-running the Install with the following:
>> 
>> bash-3.2$ sudo ./Install -d /opt/esru --gcc4 --reuse_ish_calcs --complex --xml --force --compiler_version -6
>> 
>> The "--compiler_version -6” is because I am using homebrew as the package manager.
>> 
>> It does say that it is including xml support (after renaming the folder  libxml2-2.9.1 to  libxml2).
>> 
>> I do get an error message at the start "./Install: line 334: ldconfig: command not found”
>> 
>> Line 334 is:         ld_output=`ldconfig -p | grep libxslt`
>> 
>> As far as I can Google, it seems that ldconfig is not available in OS X and neither is it needed.
>> 
>> Can anyone confirm this?
>> 
>> Christopher Heard
>> 
>> 
>>> On 29 Oct 2019, at 11:30, esp-r-request at lists.strath.ac.uk <mailto:esp-r-request at lists.strath.ac.uk> wrote:
>>> 
>>> Send esp-r mailing list submissions to
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>>> 
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>>> 
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>>> 
>>> When replying, please edit your Subject line so it is more specific
>>> than "Re: Contents of esp-r digest..."
>>> 
>>> 
>>> Today's Topics:
>>> 
>>>   1.  Problem on plant database compilation...
>>>      (Clodoaldo Carvalho Filho)
>>>   2. Re: Problem on plant database compilation... (Jon Hand)
>>> 
>>> 
>>> ----------------------------------------------------------------------
>>> 
>>> Message: 1
>>> Date: Tue, 29 Oct 2019 13:34:13 -0300
>>> From: Clodoaldo Carvalho Filho <clodoaldo at ufc.br <mailto:clodoaldo at ufc.br>>
>>> Subject: [esp-r]  Problem on plant database compilation...
>>> To: esp-r at lists.strath.ac.uk <mailto:esp-r at lists.strath.ac.uk>
>>> Message-ID:
>>> <CALTyuFQiaE1U08jVUzpu2PXzQjexyULAjmDf_NXiQLi9KATghA at mail.gmail.com <mailto:CALTyuFQiaE1U08jVUzpu2PXzQjexyULAjmDf_NXiQLi9KATghA at mail.gmail.com>>
>>> Content-Type: text/plain; charset="utf-8"
>>> 
>>> Hello everyone,
>>> 
>>> I'm trying to compile esp-r v.13.3.7 source code on Unbutu 18.04 LTS with
>>> gcc and GNU Fortran 8.3.0. The whole process seems to run OK except for pdb
>>> and plant databases.
>>> 
>>> This is the output I got:
>>> 
>>> - installing plant components databases ...At line 192 of file pdb.F
>>> Fortran runtime error: End of record
>>> 
>>> Error termination. Backtrace:
>>> #0  0x7f2d855be70d in ???
>>> #1  0x7f2d855bf235 in ???
>>> #2  0x7f2d855bfc9b in ???
>>> #3  0x7f2d857e1168 in ???
>>> #4  0x7f2d857ed035 in ???
>>> #5  0x7f2d857e466c in ???
>>> #6  0x7f2d857e482b in ???
>>> #7  0x7f2d857e1035 in ???
>>> #8  0x564573b59b48 in ???
>>> #9  0x564573b5c902 in ???
>>> #10  0x7f2d84c19b96 in ???
>>> #11  0x564573b4e129 in ???
>>> #12  0xffffffffffffffff in ???
>>> mv: n?o foi poss?vel obter estado de 'plantc.db1': Arquivo ou diret?rio
>>> inexistente
>>> At line 192 of file pdb.F
>>> Fortran runtime error: End of record
>>> 
>>> Error termination. Backtrace:
>>> #0  0x7f0da1cb270d in ???
>>> #1  0x7f0da1cb3235 in ???
>>> #2  0x7f0da1cb3c9b in ???
>>> #3  0x7f0da1ed5168 in ???
>>> #4  0x7f0da1ee1035 in ???
>>> #5  0x7f0da1ed866c in ???
>>> #6  0x7f0da1ed882b in ???
>>> #7  0x7f0da1ed5035 in ???
>>> #8  0x55928feafb48 in ???
>>> #9  0x55928feb2902 in ???
>>> #10  0x7f0da130db96 in ???
>>> #11  0x55928fea4129 in ???
>>> #12  0xffffffffffffffff in ???
>>> mv: n?o foi poss?vel obter estado de 'plantc.db2': Arquivo ou diret?rio
>>> inexistente
>>> At line 192 of file pdb.F
>>> Fortran runtime error: End of record
>>> 
>>> Error termination. Backtrace:
>>> #0  0x7f832a5a370d in ???
>>> #1  0x7f832a5a4235 in ???
>>> #2  0x7f832a5a4c9b in ???
>>> #3  0x7f832a7c6168 in ???
>>> #4  0x7f832a7d2035 in ???
>>> #5  0x7f832a7c966c in ???
>>> #6  0x7f832a7c982b in ???
>>> #7  0x7f832a7c6035 in ???
>>> #8  0x55af8857cb48 in ???
>>> #9  0x55af8857f902 in ???
>>> #10  0x7f8329bfeb96 in ???
>>> #11  0x55af88571129 in ???
>>> #12  0xffffffffffffffff in ???
>>> mv: n?o foi poss?vel obter estado de 'plantc.tt': Arquivo ou diret?rio
>>> inexistente
>>> done.
>>> 
>>> I experience the same problem when installing the precompiled version
>>> downloaded from ESRU.
>>> 
>>> Any help would be appreciated.
>>> 
>>> Regards,
>>> 
>>> Clodoaldo.
>>> --
>>> *Prof. Clodoaldo de O. Carvalho Filho, Dr.*
>>> Universidade Federal do Cear?
>>> Depto. de Engenharia Mec?nica
>>> Lab. de Efici?ncia Energ?tica no Conforto Ambiental - Coordenador
>>> PET Engenharia Mec?nica - Tutor
>>> ASHRAE Fortaleza Student Branch - Advisor
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>>> 
>>> ------------------------------
>>> 
>>> Message: 2
>>> Date: Tue, 29 Oct 2019 17:00:29 +0000
>>> From: Jon Hand <jon at esru.strath.ac.uk <mailto:jon at esru.strath.ac.uk>>
>>> Subject: [esp-r] Re: Problem on plant database compilation...
>>> To: Clodoaldo Carvalho Filho <clodoaldo at ufc.br <mailto:clodoaldo at ufc.br>>,
>>> "esp-r at lists.strath.ac.uk <mailto:esp-r at lists.strath.ac.uk>"
>>> <esp-r at lists.strath.ac.uk <mailto:esp-r at lists.strath.ac.uk>>
>>> Message-ID:
>>> <D30AFF4D10A0B64490B23B07B41010D4DC6F2A44 at EX2010-MBX3.ds.strath.ac.uk <mailto:D30AFF4D10A0B64490B23B07B41010D4DC6F2A44 at EX2010-MBX3.ds.strath.ac.uk>>
>>> Content-Type: text/plain; charset="iso-8859-1"
>>> 
>>> 
>>> This is a string buffer overflow that is happening while writing
>>> the title of the application.  To correct this open up the file
>>> pdb.F in a text editor and look for a string variable named pagestitle
>>> change its definition to the following and this should fix the issue.
>>> 
>>>      character pagestitle*112 ! for banner title via epages call
>>> 
>>> You then need to re-compile the pdb application. 
>>> 
>>> Regards, Jon Hand
>>> ________________________________________
>>> From: esp-r-bounces at lists.strath.ac.uk <mailto:esp-r-bounces at lists.strath.ac.uk> [esp-r-bounces at lists.strath.ac.uk <mailto:esp-r-bounces at lists.strath.ac.uk>] on behalf of Clodoaldo Carvalho Filho [clodoaldo at ufc.br <mailto:clodoaldo at ufc.br>]
>>> Sent: 29 October 2019 16:34
>>> To: esp-r at lists.strath.ac.uk <mailto:esp-r at lists.strath.ac.uk>
>>> Subject: [esp-r]  Problem on plant database compilation...
>>> 
>>> Hello everyone,
>>> 
>>> I'm trying to compile esp-r v.13.3.7 source code on Unbutu 18.04 LTS with gcc and GNU Fortran 8.3.0. The whole process seems to run OK except for pdb and plant databases.
>>> 
>>> This is the output I got:
>>> 
>>> - installing plant components databases ...At line 192 of file pdb.F
>>> Fortran runtime error: End of record
>>> 
>>> Error termination. Backtrace:
>>> #0  0x7f2d855be70d in ???
>>> #1  0x7f2d855bf235 in ???
>>> #2  0x7f2d855bfc9b in ???
>>> #3  0x7f2d857e1168 in ???
>>> #4  0x7f2d857ed035 in ???
>>> #5  0x7f2d857e466c in ???
>>> #6  0x7f2d857e482b in ???
>>> #7  0x7f2d857e1035 in ???
>>> #8  0x564573b59b48 in ???
>>> #9  0x564573b5c902 in ???
>>> #10  0x7f2d84c19b96 in ???
>>> #11  0x564573b4e129 in ???
>>> #12  0xffffffffffffffff in ???
>>> mv: n?o foi poss?vel obter estado de 'plantc.db1': Arquivo ou diret?rio inexistente
>>> At line 192 of file pdb.F
>>> Fortran runtime error: End of record
>>> 
>>> Error termination. Backtrace:
>>> #0  0x7f0da1cb270d in ???
>>> #1  0x7f0da1cb3235 in ???
>>> #2  0x7f0da1cb3c9b in ???
>>> #3  0x7f0da1ed5168 in ???
>>> #4  0x7f0da1ee1035 in ???
>>> #5  0x7f0da1ed866c in ???
>>> #6  0x7f0da1ed882b in ???
>>> #7  0x7f0da1ed5035 in ???
>>> #8  0x55928feafb48 in ???
>>> #9  0x55928feb2902 in ???
>>> #10  0x7f0da130db96 in ???
>>> #11  0x55928fea4129 in ???
>>> #12  0xffffffffffffffff in ???
>>> mv: n?o foi poss?vel obter estado de 'plantc.db2': Arquivo ou diret?rio inexistente
>>> At line 192 of file pdb.F
>>> Fortran runtime error: End of record
>>> 
>>> Error termination. Backtrace:
>>> #0  0x7f832a5a370d in ???
>>> #1  0x7f832a5a4235 in ???
>>> #2  0x7f832a5a4c9b in ???
>>> #3  0x7f832a7c6168 in ???
>>> #4  0x7f832a7d2035 in ???
>>> #5  0x7f832a7c966c in ???
>>> #6  0x7f832a7c982b in ???
>>> #7  0x7f832a7c6035 in ???
>>> #8  0x55af8857cb48 in ???
>>> #9  0x55af8857f902 in ???
>>> #10  0x7f8329bfeb96 in ???
>>> #11  0x55af88571129 in ???
>>> #12  0xffffffffffffffff in ???
>>> mv: n?o foi poss?vel obter estado de 'plantc.tt<http://plantc.tt <http://plantc.tt/>>': Arquivo ou diret?rio inexistente
>>> done.
>>> 
>>> I experience the same problem when installing the precompiled version downloaded from ESRU.
>>> 
>>> Any help would be appreciated.
>>> 
>>> Regards,
>>> 
>>> Clodoaldo.
>>> --
>>> Prof. Clodoaldo de O. Carvalho Filho, Dr.
>>> Universidade Federal do Cear?
>>> Depto. de Engenharia Mec?nica
>>> Lab. de Efici?ncia Energ?tica no Conforto Ambiental - Coordenador
>>> PET Engenharia Mec?nica - Tutor
>>> ASHRAE Fortaleza Student Branch - Advisor
>>> 
>>> 
>>> 
>>> 
>>> 
>>> ------------------------------
>>> 
>>> _______________________________________________
>>> esp-r mailing list
>>> esp-r at lists.strath.ac.uk <mailto:esp-r at lists.strath.ac.uk>
>>> http://lists.strath.ac.uk/mailman/listinfo/esp-r <http://lists.strath.ac.uk/mailman/listinfo/esp-r>
>>> 
>>> End of esp-r Digest, Vol 149, Issue 2
>>> *************************************
>> 
>> _______________________________________________
>> esp-r mailing list
>> esp-r at lists.strath.ac.uk <mailto:esp-r at lists.strath.ac.uk>
>> http://lists.strath.ac.uk/mailman/listinfo/esp-r <http://lists.strath.ac.uk/mailman/listinfo/esp-r>
> achim.geissler at intergga.ch <mailto:achim.geissler at intergga.ch>
achim.geissler at intergga.ch

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