Yambo Community Forum

Dear Sir

I try to compile the Yambo-4.4.0 code with Abinit-8.10.4 on Ubuntu 18.10 and 3 days ago is not finish.

For a newbies user, Could you teach me a step by step for comp[ile Yambo-4.4.0 with Abinit-8.10.3 ?

Such as First How? for not an expert user

Dear mutta,
please sign your post with your full name and affiliation, this is a rule of the forum and you can do once for all by filling your signature in the user profile.
First, I strongly suggest you update to the latest source (yambo 4.5) as I'm not totally sure that the 4.4 is compatible with abinit.
Next, there is not specific compilation for yambo to be compatible with abinit, you need to compile yambo and its interfaces and use the a2y executable to generate yambo databases from a previous abinit calculation.
If you have problem in compiling yambo, please post here the problem you are facing with any detail that can be useful to spot the problem.

Best,
Daniele

Dear Daniele

I try Yambo-4.5.1 a few days and ./configure was fine but to "make all" Yambo build failed



Best Regard
Abdulmutta Thatribud

Department of Science,
Prince of Songkla University Pattani Campus, Thailand

Dear Abdulmutta,

please post the error message you get, otherwise, it is very hard to understand what is going on.
Furthermore, you are not interested in all the executable of the yambo package so I suggest you to do a

> make yambo interfaces ypp

Best,
Daniele

Dear Daniele

I try with your introducing, and it also got error see below

>>>[Making qe_pseudo]<<<
<command-line>: warning: ISO C99 requires whitespace after the macro name
make[1]: Entering directory '/home/mutta/Downloads/yambo-4.5.1/lib/qe_pseudo'
cd /home/mutta/Downloads/yambo-4.5.1/lib/qe_pseudo; /home/mutta/Downloads/yambo-4.5.1/sbin/moduledep.sh atom.o becmod.o constants.o kind.o parameters.o pseudo_types.o s_psi.o uspp.o qe_auxdata.o invmat.o init_us_1.o init_us_2.o radial_grids.o ylmr2.o us_module.o recvec.o spin_orb.o simpsn.o upf_to_internal.o upf.o read_upf_v1.o read_upf_v2.o read_pseudo.o read_ncpp.o read_uspp.o struct_fact.o sph_ind.o spinor.o sph_bes.o qvan2.o setqf.o matches.o erf.o allocate_nlpot.o init_run.o qe_pseudo_module.o qe_errore.o addusdens.o sum_bec.o d_matrix.o > /home/mutta/Downloads/yambo-4.5.1/lib/qe_pseudo/make.dep
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
kind.f90(46): remark #8291: Recommended relationship between field width 'W' and the number of fractional digits 'D' in this edit descriptor is 'W>=D+7'.
WRITE( stdout,'(/,T2,A,T78,A,2(/,T2,A,T75,I6),3(/,T2,A,T67,E14.8))') &
--------------------------------------------------------------------^
kind.f90(52): remark #8291: Recommended relationship between field width 'W' and the number of fractional digits 'D' in this edit descriptor is 'W>=D+7'.
WRITE( stdout,'(/,T2,A,T78,A,2(/,T2,A,T75,I6),3(/,T2,A,T67,E14.8))') &
--------------------------------------------------------------------^
kind.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
constants.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
radial_grids.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
atom.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
parameters.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
qe_auxdata.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
recvec.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
becmod.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
pseudo_types.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
spin_orb.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
invmat.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
uspp.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
s_psi.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
us_module.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
init_us_1.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
init_us_2.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
ylmr2.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
simpsn.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
upf_to_internal.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
read_upf_v1.F f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
f951: Warning: Nonexistent include directory ‘/home/mutta/Downloads/yambo-4.5.1/lib/external/gfortran//home/mutta/mpich3-intel/bin/mpifort/v4/parallel/include’ [-Wmissing-include-dirs]
read_upf_v2.f90(20): error #7002: Error in opening the compiled module file. Check INCLUDE paths. [IOTK_MODULE]
USE iotk_module
------------^
read_upf_v2.f90(54): error #6632: Keyword arguments are invalid without an explicit interface. [ATTR]
CALL iotk_open_read(u, attr=attr, root=root, ierr=ierr_)
--------------------------^
read_upf_v2.f90(54): error #6632: Keyword arguments are invalid without an explicit interface. [ROOT]
CALL iotk_open_read(u, attr=attr, root=root, ierr=ierr_)
-------------------------------------^
read_upf_v2.f90(54): error #6632: Keyword arguments are invalid without an explicit interface. [IERR]
CALL iotk_open_read(u, attr=attr, root=root, ierr=ierr_)
------------------------------------------------^
read_upf_v2.f90(58): error #6632: Keyword arguments are invalid without an explicit interface. [IERR]
CALL iotk_close_read(u,ierr=ierr_)
------------------------------^
read_upf_v2.f90(70): error #6632: Keyword arguments are invalid without an explicit interface. [FOUND]
CALL iotk_scan_begin(u,'PP_INFO',found=found)
------------------------------------^
read_upf_v2.f90(39): error #6279: A specification expression object must be a dummy argument, a COMMON block object, or an object accessible through host or use association. [IOTK_NAMLENX]
CHARACTER(len=iotk_namlenx) :: root
-----------------^
read_upf_v2.f90(40): error #7915: A specification expression object must be a dummy argument, a COMMON block object, or an object accessible through host or use association - may be used in multiple contained procedures. [IOTK_ATTLENX]
CHARACTER(len=iotk_attlenx) :: attr
-----------------^
read_upf_v2.f90(40): error #6404: This name does not have a type, and must have an explicit type. [IOTK_ATTLENX]
CHARACTER(len=iotk_attlenx) :: attr
-----------------^
read_upf_v2.f90(39): error #6404: This name does not have a type, and must have an explicit type. [IOTK_NAMLENX]
CHARACTER(len=iotk_namlenx) :: root
-----------------^
read_upf_v2.f90(146): error #6632: Keyword arguments are invalid without an explicit interface. [ATTR]
CALL iotk_scan_empty(u, 'PP_HEADER', attr=attr)
-------------------------------------------^
read_upf_v2.f90(147): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'generated', upf%generated, default=' ')
--------------------------------------------------------------------^
read_upf_v2.f90(148): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'author', upf%author, default='anonymous')
--------------------------------------------------------------------^
read_upf_v2.f90(149): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'date', upf%date, default=' ')
--------------------------------------------------------------------^
read_upf_v2.f90(150): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'comment', upf%comment, default=' ')
--------------------------------------------------------------------^
read_upf_v2.f90(158): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'is_coulomb', upf%tcoulombp, default=.false.)
--------------------------------------------------------------------^
read_upf_v2.f90(160): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'has_so', upf%has_so, default=.false.)
--------------------------------------------------------------------^
read_upf_v2.f90(161): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'has_wfc', upf%has_wfc, default=upf%tpawp)
--------------------------------------------------------------------^
read_upf_v2.f90(162): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'has_gipaw', upf%has_gipaw, default=.false.)
--------------------------------------------------------------------^
read_upf_v2.f90(175): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'total_psenergy', upf%etotps, default=0._dp)
--------------------------------------------------------------------^
read_upf_v2.f90(176): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'wfc_cutoff', upf%ecutwfc, default=0._dp)
--------------------------------------------------------------------^
read_upf_v2.f90(177): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'rho_cutoff', upf%ecutrho, default=0._dp)
--------------------------------------------------------------------^
read_upf_v2.f90(178): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'l_max', upf%lmax, default=0)
--------------------------------------------------------------------^
read_upf_v2.f90(179): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'l_max_rho', upf%lmax_rho, default=2*upf%lmax)
--------------------------------------------------------------------^
read_upf_v2.f90(180): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'l_local', upf%lloc, default=0)
--------------------------------------------------------------------^
read_upf_v2.f90(202): error #6632: Keyword arguments are invalid without an explicit interface. [ATTR]
CALL iotk_scan_begin(u, 'PP_MESH', attr=attr)
-----------------------------------------^
read_upf_v2.f90(204): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'dx', upf%dx, default=0._dp)
---------------------------------------------------^
read_upf_v2.f90(205): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'mesh', upf%mesh, default=upf%mesh)
---------------------------------------------------^
read_upf_v2.f90(206): error #6632: Keyword arguments are invalid without an explicit interface. [DEFAULT]
CALL iotk_scan_attr(attr, 'xmin', upf%xmin, default=0._dp)
---------------------------------------------------^
read_upf_v2.f90(724): catastrophic error: Too many errors, exiting
compilation aborted for read_upf_v2.f90 (code 1)
make[1]: *** [Makefile:169: read_upf_v2.o] Error 1
make[1]: Leaving directory '/home/mutta/Downloads/yambo-4.5.1/lib/qe_pseudo'
make: *** [Makefile:180: int-libs] Error 2

Dear Abdulmutta,
please use attachment instead of copy-paste long part of the files.
There are some inconsistencies in your configuration, it seems you want to use intel compilers but the FC_KIND is set to gfortran.
You have the compilers in your home and you should be sure that the environment is set properly.
My suggestion is:
1) Install properly your compilers and not leave them in your home.
2) When configuring yambo assign also the compiler (ifort or gfortran) to the FC/F77 variables and not only to the MPIFC/MPIF77. I suspect that here there are some inconsistencies. Note that now the FC compiler points to gfortran libraries.
3) It is important you do a before trying to compile the code again.


Daniele