[AMBER-Developers] amber 14 compile problem netcdf and nab

From: Crowley, Michael <Michael.Crowley.nrel.gov>
Date: Fri, 27 Sep 2013 11:11:01 -0600

Can anyone help me with this, nab make does not finish because of not
finding libnetcdf,a I think, but I specified -nobintraj. If I get rid of
the nobintraj, then netcdf does not compile, I am plain stuck unless I
take nab out of my compile but prefer not to muck with Makefiles.
Thanks for any help,

% ./configure -nobintraj -nomtkpp -norism intel

% make install
make[2]: Entering directory `/store3/Amber/Pristine13/AmberTools/src/nss'
ar rv /store3/Amber/Pristine13/lib/libnab.a symop.o tss.o
a - symop.o
a - tss.o
ranlib /store3/Amber/Pristine13/lib/libnab.a
/store3/Amber/Pristine13/bin/nab -c matextract.nab
/store3/Amber/Pristine13/bin/nab -o matextract matextract.o
ld: cannot find -lnetcdf
cc failed!
make[2]: *** [matextract] Error 1
make[2]: Leaving directory `/store3/Amber/Pristine13/AmberTools/src/nss'
make[1]: *** [serial] Error 2
make[1]: Leaving directory `/store3/Amber/Pristine13/AmberTools/src'
make: *** [install] Error 2

Michael F. Crowley, Ph.D.
Principal Scientist, Biomolecular Sciences Division
National Renewable Energy Laboratory
1617 Cole Blvd.
Golden, CO 80401
303-384-6345 office
303-887-0149 cell
On 8/27/13 2:56 PM, "Ross Walker" <ross.rosswalker.co.uk> wrote:
>Ok - since I needed an excuse to constructively procrastinate and actually
>do some useful work rather than wasting time writing proposals that will
>just score 1 point below the funding line - I have fixed the page.
>The html is now so clean that I reckon I could render it by hand. If
>Chrome still gets it wrong then it is just being dumb.
>It would help if people checked their html carefully when adding to such
>pages - basically everything after tutorial A7 was screwed up, mostly from
>people cutting and pasting wrong from what I could and also not proof
>reading the HTML.
>Some examples of what was wrong:
>Missing </a>
>Lots of <td></td> - not encompassed by <tr>...</tr>
>Misplaced </table>
>Several <tr> without matching </tr>
>People stuffing images of width > 100 pixels into cells specified as 100
>pixel wide.
><center> tag with no </center>
><blockquote> without </blockquote>
>etc etc.
>It's amazing it ever rendered at all.
>All the best
>On 8/27/13 10:49 AM, "David A Case" <case.biomaps.rutgers.edu> wrote:
>>On Tue, Aug 27, 2013, Ross Walker wrote:
>>> BTW - http://ambermd.org/tutorials/ looks fine for me in Safari and
>>> Internet Exploder - what's the issue in Chrome? I suspect it may just
>>> an errant or missing /table given it appears to render okay in other
>>> browsers.
>>It only appears in some versions of Chrome -- the figures disappear about
>>half-way down the page.  If you locate the missing flag, please go ahead
>>and fix it.
>>But independent of that....the html code on that page is quite ugly, and
>>unmaintainable in my view.  I'd like to clean it up before embarking on
>>a reorganization of the tutorials.
>>So far, it just looks like people want to argue about wiki's: no one
>>to actually do any work....
>>AMBER-Developers mailing list
>AMBER-Developers mailing list
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Received on Fri Sep 27 2013 - 10:30:03 PDT
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