Ticket #34990 (new defect)
shogun: Undefined symbols: _drot_ _dswap_ __gfortran_concat_string _dgemm_ etc.
| Reported by: | noelia@… | Owned by: | jameskyle@… |
|---|---|---|---|
| Priority: | Normal | Milestone: | |
| Component: | ports | Version: | 2.1.1 |
| Keywords: | Cc: | ryandesign@…, trandu@…, kyunghee.kim@… | |
| Port: | shogun |
Description
The version of shogun on macports (0.9.3) came out before swig version 2.x.x. The source of the error is that configure does not check for the first digit in the version.
REQUEST: Update the shogun port to the current release
Attachments
Change History
comment:2 Changed 11 months ago by ryandesign@…
- Cc ryandesign@… added; noelia@… removed
- Priority changed from High to Normal
- Type changed from request to defect
- Owner changed from macports-tickets@… to jameskyle@…
- Keywords shogun removed
The version of shogun on macports (0.9.3) came out before swig version 2.x.x. The source of the error is that configure does not check for the first digit in the version.
I'm unable to reproduce this problem. According to #25429 we already fixed this two years ago in r69300. Please "sudo port selfupdate", "sudo port clean shogun", and try again. If it still fails, attach the main.log file to this ticket.
REQUEST: Update the shogun port to the current release
This has already been requested in #33205.
comment:4 Changed 11 months ago by ryandesign@…
- Summary changed from SHOGUN installation: Error: swig too old version 1.3.36 or later required to shogun: Undefined symbols: _drot_ _dswap_ __gfortran_concat_string _dgemm_ etc.
Ok, so the relevant error in the log seems to be:
:info:build Undefined symbols for architecture x86_64: :info:build "_drot_", referenced from: :info:build _dbdsqr_ in liblapack.a(dbdsqr.o) :info:build "_dswap_", referenced from: :info:build _dbdsqr_ in liblapack.a(dbdsqr.o) :info:build _dsteqr_ in liblapack.a(dsteqr.o) :info:build (maybe you meant: _ATL_dswap_xp0yp0aXbX) :info:build "__gfortran_concat_string", referenced from: :info:build _dgesvd_ in liblapack.a(dgesvd.o) :info:build _dormbr_ in liblapack.a(dormbr.o) :info:build _dormqr_ in liblapack.a(dormqr.o) :info:build _dormlq_ in liblapack.a(dormlq.o) :info:build "_dgemm_", referenced from: :info:build _dgesvd_ in liblapack.a(dgesvd.o) :info:build _dgebrd_ in liblapack.a(dgebrd.o) :info:build "_dgemv_", referenced from: :info:build _dlabrd_ in liblapack.a(dlabrd.o) :info:build _dlatrd_ in liblapack.a(dlatrd.o) :info:build _dlarf_ in liblapack.a(dlarf.o) :info:build "_dger_", referenced from: :info:build _dlarf_ in liblapack.a(dlarf.o) :info:build (maybe you meant: _ATL_dger_L1, _ATL_dger_L2 , _ATL_dger_OOC ) :info:build "_dnrm2_", referenced from: :info:build _dlarfg_ in liblapack.a(dlarfg.o) :info:build (maybe you meant: _ATL_dnrm2_xp1yp0aXbX, _ATL_dnrm2_xp0yp0aXbX ) :info:build "_dcopy_", referenced from: :info:build _dlasq1_ in liblapack.a(dlasq1.o) :info:build (maybe you meant: _ATL_dcopy_xp1yp1aXbX, _ATL_dcopy_xp0yp0aXbX ) :info:build "_dsymv_", referenced from: :info:build _dlatrd_ in liblapack.a(dlatrd.o) :info:build _dsytd2_ in liblapack.a(dsytd2.o) :info:build "_ddot_", referenced from: :info:build _dlatrd_ in liblapack.a(dlatrd.o) :info:build _dsytd2_ in liblapack.a(dsytd2.o) :info:build (maybe you meant: _ATL_ddot_xp1yp1aXbX, _ATL_ddot_xp0yp0aXbX ) :info:build "_daxpy_", referenced from: :info:build _dlatrd_ in liblapack.a(dlatrd.o) :info:build _dsytd2_ in liblapack.a(dsytd2.o) :info:build (maybe you meant: _ATL_daxpy_xp1yp1aXbX, _ATL_daxpy_xp0yp0aXbX ) :info:build "_lsame_", referenced from: :info:build _dsyev_ in liblapack.a(dsyev.o) :info:build _dgesvd_ in liblapack.a(dgesvd.o) :info:build _dorgbr_ in liblapack.a(dorgbr.o) :info:build _dlange_ in liblapack.a(dlange.o) :info:build _dlaset_ in liblapack.a(dlaset.o) :info:build _dbdsqr_ in liblapack.a(dbdsqr.o) :info:build _dlacpy_ in liblapack.a(dlacpy.o) :info:build ... :info:build "_xerbla_", referenced from: :info:build _dsyev_ in liblapack.a(dsyev.o) :info:build _dgesvd_ in liblapack.a(dgesvd.o) :info:build _dgeqrf_ in liblapack.a(dgeqrf.o) :info:build _dorgqr_ in liblapack.a(dorgqr.o) :info:build _dgebrd_ in liblapack.a(dgebrd.o) :info:build _dorgbr_ in liblapack.a(dorgbr.o) :info:build _dgelqf_ in liblapack.a(dgelqf.o) :info:build ... :info:build "_dscal_", referenced from: :info:build _dsyev_ in liblapack.a(dsyev.o) :info:build _dbdsqr_ in liblapack.a(dbdsqr.o) :info:build _dlabrd_ in liblapack.a(dlabrd.o) :info:build _dorgl2_ in liblapack.a(dorgl2.o) :info:build _dorg2r_ in liblapack.a(dorg2r.o) :info:build _dlatrd_ in liblapack.a(dlatrd.o) :info:build _dlarfg_ in liblapack.a(dlarfg.o) :info:build ... :info:build (maybe you meant: _ATL_dscal_xp1yp0aXbX, _ATL_dscal_xp0yp0aXbX ) :info:build "_dsyr2_", referenced from: :info:build _dsytd2_ in liblapack.a(dsytd2.o) :info:build "_dsyr2k_", referenced from: :info:build _dsytrd_ in liblapack.a(dsytrd.o) :info:build "__gfortran_compare_string", referenced from: :info:build _ilaenv_ in liblapack.a(ilaenv.o) :info:build ld: symbol(s) not found for architecture x86_64
comment:6 follow-up: ↓ 7 Changed 10 months ago by ryandesign@…
- Cc trandu@… added
Has duplicate #35238.
comment:7 in reply to: ↑ 6 ; follow-up: ↓ 8 Changed 3 months ago by kyunghee.kim@…
I am trying to install shogun now and have the same problem. Does anyone know how this problem has been fixed?
Error: Processing of port py26-pymvpa failed macports.org_release_ports_math_shogun/shogun/main.logar_macports_sources_rsync.m :info:build Undefined symbols for architecture x86_64: :info:build "_drot_", referenced from: :info:build _dbdsqr_ in liblapack.a(dbdsqr.o) :info:build "_dswap_", referenced from: :info:build _dbdsqr_ in liblapack.a(dbdsqr.o) :info:build _dsteqr_ in liblapack.a(dsteqr.o) :info:build (maybe you meant: _ATL_dswap_xp0yp0aXbX) :info:build "__gfortran_concat_string", referenced from: :info:build _dgesvd_ in liblapack.a(dgesvd.o) :info:build _dormbr_ in liblapack.a(dormbr.o) :info:build _dormqr_ in liblapack.a(dormqr.o) :info:build _dormlq_ in liblapack.a(dormlq.o) :info:build "_dgemm_", referenced from: :info:build _dgesvd_ in liblapack.a(dgesvd.o) :info:build _dgebrd_ in liblapack.a(dgebrd.o) :info:build "_dgemv_", referenced from: :info:build _dlabrd_ in liblapack.a(dlabrd.o) :info:build _dlatrd_ in liblapack.a(dlatrd.o) :info:build _dlarf_ in liblapack.a(dlarf.o) :info:build "_dger_", referenced from: :info:build _dlarf_ in liblapack.a(dlarf.o) :info:build (maybe you meant: _ATL_dger_L1, _ATL_dger_L2 , _ATL_dger_OOC ) :info:build "_dnrm2_", referenced from: :info:build _dlarfg_ in liblapack.a(dlarfg.o) :info:build (maybe you meant: _ATL_dnrm2_xp1yp0aXbX, _ATL_dnrm2_xp0yp0aXbX ) :info:build "_dcopy_", referenced from: :info:build _dlasq1_ in liblapack.a(dlasq1.o) :info:build (maybe you meant: _ATL_dcopy_xp1yp1aXbX, _ATL_dcopy_xp0yp0aXbX )
Replying to ryandesign@…:
Has duplicate #35238.
comment:8 in reply to: ↑ 7 Changed 3 months ago by ryandesign@…
- Cc kyunghee.kim@… added
Replying to kyunghee.kim@…:
I am trying to install shogun now and have the same problem. Does anyone know how this problem has been fixed?
As you have seen, it has not been fixed; that is why this ticket is still open.
comment:10 Changed 6 weeks ago by ryandesign@…
Please check if this is still a problem with shogun 2.1.0.
comment:11 Changed 5 days ago by ryandesign@…
According to the snowleopard buildbot, it's still a problem there. The lion and mountainlion buildbots had no problem.
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