duh, sorry - hadn't seen that. The installation now runs to completion with
the newer version of flex but I get a high failure rate on running the test
3 - pvBV
4 - pyDiscreteValueVect
5 - pySparseIntVect
8 - testPyGeometry
11 - pyAlignment
25 - pyDepictor
35 - pyChemReactions
40 - pyFragCatalog
42 - pyMolDescriptors
all failed and the list goes on to 76, pythonTestDirChem.
________________________________
From: greg landrum <[email protected]>
To: stanley5101 <[email protected]>
Cc: "[email protected]" <[email protected]>
Sent: Friday, 31 August 2012, 17:39
Subject: Re: [Rdkit-discuss] rdkit on ubuntu 10.04 LTS 32 bit
Hi Alan,
On Aug 31, 2012, at 5:58 PM, stanley5101 <[email protected]> wrote:
Hi,
>I'm now trying to build Rdkit (RDKit_2012_06_1) on a linux machine and things
>were going well until....
>
>
>[38%] [FLEX][SmartsL] Building scanner with flex /usr/bin/flex version 2.5.4
>"smarts.ll", line 1: unrecognised %option: reentrant
>"smarts.ll", line 2: unrecognised %option: bison-bridge
>make[2]: *** [../Code/GraphMol/SmilesParse/lex.yysmarts.cpp] Error 1
>
>make[1]: *** [Code/GraphMol/SmilesParse/CMakeFiles/SmilesParse.dir/all] Error 2
>make: *** [all] Error 2
>
>
You need a more recent version of flex. This is definitely available for Ubuntu
10.04 (that was my standard Linux build machine up until recently). I don't
remember if it's available pre-built or not, but there are some details
here: http://code.google.com/p/rdkit/wiki/BuildingWithCmake
-Greg
It seems to be finding flex and if I type bison --help on the command line,
stuff happens and options
come up so I'm guessing this is OK. Both these were installed via the
Synaptic package manager. I'd welcome any suggestions about solving
this.
>thanksAlan
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