[Qgis-user] Pyspatialite installation issues on Fedora 25
William G. Guthe
wguthe at Princeton.EDU
Mon Dec 19 08:46:06 PST 2016
Hi,
I've installed QGIS 2.14.3-Essen on an i386 Toughbook running Fedora 25. The Processing plugin is missing the pyspatialite module, so I followed directions at http://blog.oddbit.com/2015/11/17/installing-pyspatialite-on-fedora/ to install the dependencies and pyspatialite itself.
All's good until I get to the CFLAGS=-I/usr/include pip install pyspatialite line of the instructions. I get this back:
# CFLAGS=-I/usr/include pip install pyspatialite
Collecting pyspatialite
Using cached pyspatialite-3.0.1-alpha-0.tar.gz
Installing collected packages: pyspatialite
Running setup.py install for pyspatialite ... error
Complete output from command /usr/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-ZUHKMv/pyspatialite/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-3kvpOW-record/install-record.txt --single-version-externally-managed --compile:
/usr/lib/python2.7/site-packages/setuptools/dist.py:364: UserWarning: Normalizing '3.0.1-alpha-0' to '3.0.1a0'
normalized_version,
running install
running build
running build_py
creating build
creating build/lib.linux-i686-2.7
creating build/lib.linux-i686-2.7/pyspatialite
copying lib/pyspatialite/dump.py -> build/lib.linux-i686-2.7/pyspatialite
copying lib/pyspatialite/dbapi2.py -> build/lib.linux-i686-2.7/pyspatialite
copying lib/pyspatialite/__init__.py -> build/lib.linux-i686-2.7/pyspatialite
running build_ext
creating tmp
gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -D_GNU_SOURCE -fPIC -fwrapv -fPIC -I/usr/include/python2.7 -I/usr/include -c /tmp/pj_init_plus1zSZm0.c -o tmp/pj_init_plus1zSZm0.o
/tmp/pj_init_plus1zSZm0.c:1:1: warning: return type defaults to 'int' [-Wimplicit-int]
main (int argc, char **argv) {
^~~~
/tmp/pj_init_plus1zSZm0.c: In function 'main':
/tmp/pj_init_plus1zSZm0.c:2:5: warning: implicit declaration of function 'pj_init_plus' [-Wimplicit-function-declaration]
pj_init_plus();
^~~~~~~~~~~~
gcc -pthread tmp/pj_init_plus1zSZm0.o -L/usr/lib -L/usr/lib -lm -lproj -o a.out
gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -D_GNU_SOURCE -fPIC -fwrapv -fPIC -I/usr/include/python2.7 -I/usr/include -c /tmp/GEOSTopologyPreserveSimplifyJ2Z9Vr.c -o tmp/GEOSTopologyPreserveSimplifyJ2Z9Vr.o
/tmp/GEOSTopologyPreserveSimplifyJ2Z9Vr.c:1:1: warning: return type defaults to 'int' [-Wimplicit-int]
main (int argc, char **argv) {
^~~~
/tmp/GEOSTopologyPreserveSimplifyJ2Z9Vr.c: In function 'main':
/tmp/GEOSTopologyPreserveSimplifyJ2Z9Vr.c:2:5: warning: implicit declaration of function 'GEOSTopologyPreserveSimplify' [-Wimplicit-function-declaration]
GEOSTopologyPreserveSimplify();
^~~~~~~~~~~~~~~~~~~~~~~~~~~~
gcc -pthread tmp/GEOSTopologyPreserveSimplifyJ2Z9Vr.o -L/usr/lib -L/usr/lib -lm -lgeos -lgeos_c -o a.out
gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -D_GNU_SOURCE -fPIC -fwrapv -fPIC -I/usr/include/python2.7 -I/usr/include -c /tmp/iconvzp2nyR.c -o tmp/iconvzp2nyR.o
/tmp/iconvzp2nyR.c:1:1: warning: return type defaults to 'int' [-Wimplicit-int]
main (int argc, char **argv) {
^~~~
/tmp/iconvzp2nyR.c: In function 'main':
/tmp/iconvzp2nyR.c:2:5: warning: implicit declaration of function 'iconv' [-Wimplicit-function-declaration]
iconv();
^~~~~
building 'pyspatialite._spatialite' extension
creating build/temp.linux-i686-2.7
creating build/temp.linux-i686-2.7/src
creating build/temp.linux-i686-2.7/amalgamation
creating build/temp.linux-i686-2.7/amalgamation/libspatialite-amalgamation-3.0.1
gcc -pthread -fno-strict-aliasing -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -D_GNU_SOURCE -fPIC -fwrapv -DNDEBUG -O2 -g -pipe -Wall -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector-strong --param=ssp-buffer-size=4 -grecord-gcc-switches -specs=/usr/lib/rpm/redhat/redhat-hardened-cc1 -m32 -march=i686 -mtune=atom -fasynchronous-unwind-tables -D_GNU_SOURCE -fPIC -fwrapv -fPIC -DVERSION="3.0.1" -DSQLITE_ENABLE_RTREE=1 -DNDEBUG=1 -DSPL_AMALGAMATION=1 -DMODULE_NAME="spatialite.dbapi2" -DHAVE_PROJ_API_H=1 -DHAVE_GEOS_C_H=1 -Iamalgamation/libspatialite-amalgamation-3.0.1/headers -I/usr/include/python2.7 -I/usr/include -c src/module.c -o build/temp.linux-i686-2.7/src/module.o -DOMIT_FREEXL
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:648:8: error: redefinition of 'struct sqlite3_file'
struct sqlite3_file {
^~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:818:16: note: originally defined here
typedef struct sqlite3_file sqlite3_file;
^~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:743:8: error: redefinition of 'struct sqlite3_io_methods'
struct sqlite3_io_methods {
^~~~~~~~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:820:16: note: originally defined here
const struct sqlite3_io_methods *pMethods; /* Methods for an open file */
^~~~~~~~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:1217:8: error: redefinition of 'struct sqlite3_vfs'
struct sqlite3_vfs {
^~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:1198:16: note: originally defined here
typedef struct sqlite3_vfs sqlite3_vfs;
^~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:1514:8: error: redefinition of 'struct sqlite3_mem_methods'
struct sqlite3_mem_methods {
^~~~~~~~~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:1493:16: note: originally defined here
typedef struct sqlite3_mem_methods sqlite3_mem_methods;
^~~~~~~~~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:5776:8: error: redefinition of 'struct sqlite3_module'
struct sqlite3_module {
^~~~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:5012:16: note: originally defined here
typedef struct sqlite3_module sqlite3_module;
^~~~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:5905:8: error: redefinition of 'struct sqlite3_index_info'
struct sqlite3_index_info {
^~~~~~~~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:5010:16: note: originally defined here
typedef struct sqlite3_index_info sqlite3_index_info;
^~~~~~~~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:5908:10: error: redefinition of 'struct sqlite3_index_constraint'
struct sqlite3_index_constraint {
^~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:5121:10: note: originally defined here
struct sqlite3_index_constraint {
^~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:5915:10: error: redefinition of 'struct sqlite3_index_orderby'
struct sqlite3_index_orderby {
^~~~~~~~~~~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:5128:10: note: originally defined here
struct sqlite3_index_orderby {
^~~~~~~~~~~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:5920:10: error: redefinition of 'struct sqlite3_index_constraint_usage'
struct sqlite3_index_constraint_usage {
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:5133:10: note: originally defined here
struct sqlite3_index_constraint_usage {
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:6018:8: error: redefinition of 'struct sqlite3_vtab'
struct sqlite3_vtab {
^~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:5009:16: note: originally defined here
typedef struct sqlite3_vtab sqlite3_vtab;
^~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:6042:8: error: redefinition of 'struct sqlite3_vtab_cursor'
struct sqlite3_vtab_cursor {
^~~~~~~~~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:5011:16: note: originally defined here
typedef struct sqlite3_vtab_cursor sqlite3_vtab_cursor;
^~~~~~~~~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:6537:8: error: redefinition of 'struct sqlite3_mutex_methods'
struct sqlite3_mutex_methods {
^~~~~~~~~~~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:5710:16: note: originally defined here
typedef struct sqlite3_mutex_methods sqlite3_mutex_methods;
^~~~~~~~~~~~~~~~~~~~~
In file included from src/statement.h:29:0,
from src/module.c:25:
/usr/include/sqlite3.h:7262:8: error: redefinition of 'struct sqlite3_pcache_methods'
struct sqlite3_pcache_methods {
^~~~~~~~~~~~~~~~~~~~~~
In file included from src/connection.h:33:0,
from src/module.c:24:
amalgamation/libspatialite-amalgamation-3.0.1/headers/spatialite/sqlite3.h:6325:16: note: originally defined here
typedef struct sqlite3_pcache_methods sqlite3_pcache_methods;
^~~~~~~~~~~~~~~~~~~~~~
error: command 'gcc' failed with exit status 1
----------------------------------------
Command "/usr/bin/python -u -c "import setuptools, tokenize;__file__='/tmp/pip-build-ZUHKMv/pyspatialite/setup.py';f=getattr(tokenize, 'open', open)(__file__);code=f.read().replace('\r\n', '\n');f.close();exec(compile(code, __file__, 'exec'))" install --record /tmp/pip-3kvpOW-record/install-record.txt --single-version-externally-managed --compile" failed with error code 1 in /tmp/pip-build-ZUHKMv/pyspatialite/
Sqlite3 imports into python, and the other dependencies seem to be fine. Any advice on this much appreciated.
Thanks,
Bill Guthe
Research Computing/ OIT
Princeton University
Princeton, NJ USA
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