Errors when compile kpp with ./build_mechanism.sh fullchem (already installed kpp)

[LiHui94]

Your name

Hui Li

Your affiliation

Tsinghua University

Please provide a clear and concise description of your question or discussion topic.

Hi, I am working on the kpp compiling in Fullchem (GEOS-Chem v1.4.1.1), while encountering the error below.

$ ./build_mechanism.sh fullchem

This is KPP-3.1.0.

KPP is parsing the equation file.fullchem.kpp
KPP is computing Jacobian sparsity structure.
KPP is starting the code generation.
KPP is initializing the code generation.
KPP is generating the monitor data:
    - gckpp_Monitor
KPP is generating the utility data:
    - gckpp_Util
KPP is generating the global declarations:
    - gckpp_Main
KPP is generating the ODE function:
    - gckpp_Function
KPP is generating the ODE Jacobian:
    - gckpp_Jacobian
    - gckpp_JacobianSP
KPP is generating the linear algebra routines:
    - gckpp_LinearAlgebra
KPP is generating the Hessian:
    - gckpp_Hessian
    - gckpp_HessianSP
KPP is generating the utility functions:
    - gckpp_Util
KPP is generating the rate laws:
    - gckpp_Rates
KPP is generating the parameters:
    - gckpp_Parameters
KPP is generating the global data:
    - gckpp_Global
KPP is generating the sparsity data:
    - gckpp_JacobianSP
    - gckpp_HessianSP
KPP is generating the stoichiometric description files:
    - gckpp_Stoichiom
    - gckpp_StoichiomSP
KPP is generating the driver from none.f90:
    - gckpp_Main
Fatal error : /public/home/lihui/GCClassic-14.1.1/kpp/int/none.f: Can't read file
Program aborted
KPP failed to build 'gckpp_Rates.F90'! Aborting.

I have already installed kpp (v3.1), as shown below:

$ make
gcc -g -Wall -Wno-unused-function -I/usr/include -c code.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c code_c.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c code_f77.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c code_f90.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c code_matlab.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c debug.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c gen.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c kpp.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c lex.yy.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c scanner.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c scanutil.c
gcc -g -Wall -Wno-unused-function -I/usr/include -c y.tab.c
gcc -g -Wall -Wno-unused-function code.o code_c.o code_f77.o code_f90.o code_matlab.o debug.o gen.o kpp.o lex.yy.o scanner.o scanutil.o y.tab.o -L/home/lihui/GCClassic-14.1.1/kpp/lib/ -lfl -o kpp

[LiHui94]

Sorry, the version of GEOS-Chem is v14.1.1

[yantosca]

Hi @LiHui94, thanks for writing and thanks for your patience. Most of us were at the IGC11 meeting earlier this month.

It looks like you may have installed the KPP 3.1.0 code into the GEOS-Chem/KPP/ folder. This may be causing some conflicts. Try cloning the KPP code into a separate folder from your GEOS-Chem source code. Then you can define the KPP_HOME environment variable to point to the KPP folder as described in the KPP installation instructions. I think by keeping the KPP source code out of the GEOS-Chem source code you should not run into this issue. Please let me know if this works.

[LiHui94]

Thanks for your reply, I have recompiled kpp out of GC14.1.1, but the same error still exists. Details are shown below.

[yantosca]

@LiHui94: It looks like the KPP code is looking for the int/none.f file. This was removed in KPP 3.1.0. Also check to see if there are any #INTEGRATOR none statements in your KPP files. There shouldn't be but perhaps there are some older files in your KPP path.

You might want to try again with a fresh GEOS-Chem source code folder, in case there is anything left behind from when you had the KPP code in the GEOS-Chem/KPP folder.