sqlite3 @3.7.17_0+universal: configure failure

[macports@…]

I ran

sudo port selfupdate

and

sudo port upgrade outdated

And first got an error with sqlite3.

➜  ~  sudo port upgrade outdated
--->  Computing dependencies for sqlite3
--->  Fetching archive for sqlite3
--->  Attempting to fetch sqlite3-3.7.17_0+universal.darwin_12.i386-x86_64.tbz2 from http://lil.fr.packages.macports.org/sqlite3
--->  Attempting to fetch sqlite3-3.7.17_0+universal.darwin_12.i386-x86_64.tbz2 from http://mse.uk.packages.macports.org/sites/packages.macports.org/sqlite3
--->  Attempting to fetch sqlite3-3.7.17_0+universal.darwin_12.i386-x86_64.tbz2 from http://packages.macports.org/sqlite3
--->  Fetching distfiles for sqlite3
--->  Verifying checksum(s) for sqlite3
--->  Extracting sqlite3
--->  Applying patches to sqlite3
--->  Configuring sqlite3
Error: org.macports.configure for port sqlite3 returned: configure failure: command execution failed
Please see the log file for port sqlite3 for details:
    /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/main.log
Error: Unable to upgrade port: 1

I tried to clean sqlite3 and install it again, with no success.

I'm using XCode 4.6.2 and used sudo xcode-select -switch /Applications/Xcode.app/Contents/Developer to use the latest XCode version.

[macports@…]

error log file of sqlite3

[skymoo (Adam Mercer)]

Have you installed the Xcode ​command line tools?

[macports@…]

Sorry, forgot to mention. Yes, according to XCode, the command line tools are installed.

[skymoo (Adam Mercer)]

Take a look at the config.log the log mentions and see what it has to say as to why the compiler can't be used. It'll be in the following directory:

$ cd `port dir sqlite3`/work/sqlite-autoconf-3071700

[macports@…]

Replying to ram@…:

Take a look at the config.log the log mentions and see what it has to say as to why the compiler can't be used. It'll be in the following directory:

$ cd `port dir sqlite3`/work/sqlite-autoconf-3071700

As far as I can tell there seems to be a problem with clang. Maybe you can have a look, as I'm not 100% sure, I understand correctly.

This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.

It was created by sqlite configure 3.7.17, which was
generated by GNU Autoconf 2.69.  Invocation command line was

  $ ./configure --prefix=/opt/local --disable-dependency-tracking --enable-threadsafe --enable-dynamic-extensions --enable-readline

## --------- ##
## Platform. ##
## --------- ##

hostname = localhost
uname -m = x86_64
uname -r = 12.3.0
uname -s = Darwin
uname -v = Darwin Kernel Version 12.3.0: Sun Jan  6 22:37:10 PST 2013; root:xnu-2050.22.13~1/RELEASE_X86_64

/usr/bin/uname -p = i386
/bin/uname -X     = unknown

/bin/arch              = unknown
/usr/bin/arch -k       = unknown
/usr/convex/getsysinfo = unknown
/usr/bin/hostinfo      = Mach kernel version:
	 Darwin Kernel Version 12.3.0: Sun Jan  6 22:37:10 PST 2013; root:xnu-2050.22.13~1/RELEASE_X86_64
Kernel configured for up to 2 processors.
2 processors are physically available.
2 processors are logically available.
Processor type: i486 (Intel 80486)
Processors active: 0 1
Primary memory available: 8.00 gigabytes
Default processor set: 205 tasks, 1154 threads, 2 processors
Load average: 6.03, Mach factor: 0.22
/bin/machine           = unknown
/usr/bin/oslevel       = unknown
/bin/universe          = unknown

PATH: /opt/local/bin
PATH: /opt/local/sbin
PATH: /bin
PATH: /sbin
PATH: /usr/bin
PATH: /usr/sbin


## ----------- ##
## Core tests. ##
## ----------- ##

configure:2653: checking for a BSD-compatible install
configure:2721: result: /usr/bin/install -c
configure:2732: checking whether build environment is sane
configure:2769: result: yes
configure:2831: checking for gawk
configure:2861: result: no
configure:2831: checking for mawk
configure:2861: result: no
configure:2831: checking for nawk
configure:2861: result: no
configure:2831: checking for awk
configure:2847: found /usr/bin/awk
configure:2858: result: awk
configure:2869: checking whether make sets $(MAKE)
configure:2891: result: yes
configure:3082: checking for style of include used by make
configure:3110: result: GNU
configure:3183: checking for gcc
configure:3210: result: /usr/bin/clang
configure:3439: checking for C compiler version
configure:3448: /usr/bin/clang --version >&5
Apple LLVM version 4.2 (clang-425.0.28) (based on LLVM 3.2svn)
Target: x86_64-apple-darwin12.3.0
Thread model: posix
configure:3459: $? = 0
configure:3448: /usr/bin/clang -v >&5
Apple LLVM version 4.2 (clang-425.0.28) (based on LLVM 3.2svn)
Target: x86_64-apple-darwin12.3.0
Thread model: posix
configure:3459: $? = 0
configure:3448: /usr/bin/clang -V >&5
clang: error: argument to '-V' is missing (expected 1 value)
clang: error: no input files
configure:3459: $? = 1
configure:3448: /usr/bin/clang -qversion >&5
clang: error: no input files
configure:3459: $? = 1
configure:3479: checking whether the C compiler works
configure:3501: /usr/bin/clang -pipe -O2 -arch x86_64 -arch i386 -DSQLITE_ENABLE_COLUMN_METADATA=1 -DSQLITE_ENABLE_FTS3=1 -DSQLITE_ENABLE_RTREE=1 -DSQLITE_SECURE_DELETE=1 -DSQLITE_ENABLE_UNLOCK_NOTIFY=1 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700 -I/opt/local/include -L/opt/local/lib -arch x86_64 -arch i386 conftest.c  >&5
ld: entry point (start) undefined.  Usually in crt1.o for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see invocation)
configure:3505: $? = 1
configure:3543: result: no
configure: failed program was:
| /* confdefs.h */
| #define PACKAGE_NAME "sqlite"
| #define PACKAGE_TARNAME "sqlite"
| #define PACKAGE_VERSION "3.7.17"
| #define PACKAGE_STRING "sqlite 3.7.17"
| #define PACKAGE_BUGREPORT "http://www.sqlite.org"
| #define PACKAGE_URL ""
| #define PACKAGE "sqlite"
| #define VERSION "3.7.17"
| /* end confdefs.h.  */
| 
| int
| main ()
| {
| 
|   ;
|   return 0;
| }
configure:3548: error: in `/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700':
configure:3550: error: C compiler cannot create executables
See `config.log' for more details

## ---------------- ##
## Cache variables. ##
## ---------------- ##

ac_cv_env_CCC_set=
ac_cv_env_CCC_value=
ac_cv_env_CC_set=set
ac_cv_env_CC_value=/usr/bin/clang
ac_cv_env_CFLAGS_set=set
ac_cv_env_CFLAGS_value='-pipe -O2 -arch x86_64 -arch i386'
ac_cv_env_CPPFLAGS_set=set
ac_cv_env_CPPFLAGS_value='-DSQLITE_ENABLE_COLUMN_METADATA=1 -DSQLITE_ENABLE_FTS3=1 -DSQLITE_ENABLE_RTREE=1 -DSQLITE_SECURE_DELETE=1 -DSQLITE_ENABLE_UNLOCK_NOTIFY=1 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700 -I/opt/local/include'
ac_cv_env_CPP_set=
ac_cv_env_CPP_value=
ac_cv_env_CXXCPP_set=
ac_cv_env_CXXCPP_value=
ac_cv_env_CXXFLAGS_set=set
ac_cv_env_CXXFLAGS_value='-pipe -O2 -arch x86_64 -arch i386'
ac_cv_env_CXX_set=set
ac_cv_env_CXX_value=/usr/bin/clang++
ac_cv_env_F77_set=
ac_cv_env_F77_value=
ac_cv_env_FFLAGS_set=set
ac_cv_env_FFLAGS_value='-pipe -O2'
ac_cv_env_LDFLAGS_set=set
ac_cv_env_LDFLAGS_value='-L/opt/local/lib -arch x86_64 -arch i386'
ac_cv_env_LIBS_set=
ac_cv_env_LIBS_value=
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_prog_AWK=awk
ac_cv_prog_ac_ct_CC=/usr/bin/clang
ac_cv_prog_make_make_set=yes

## ----------------- ##
## Output variables. ##
## ----------------- ##

ACLOCAL='${SHELL} /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700/missing --run aclocal-1.9'
AMDEPBACKSLASH=''
AMDEP_FALSE=''
AMDEP_TRUE='#'
AMTAR='${SHELL} /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700/missing --run tar'
AR=''
AUTOCONF='${SHELL} /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700/missing --run autoconf'
AUTOHEADER='${SHELL} /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700/missing --run autoheader'
AUTOMAKE='${SHELL} /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700/missing --run automake-1.9'
AWK='awk'
BUILD_CFLAGS=''
CC='/usr/bin/clang'
CCDEPMODE=''
CFLAGS='-pipe -O2 -arch x86_64 -arch i386'
CPP=''
CPPFLAGS='-DSQLITE_ENABLE_COLUMN_METADATA=1 -DSQLITE_ENABLE_FTS3=1 -DSQLITE_ENABLE_RTREE=1 -DSQLITE_SECURE_DELETE=1 -DSQLITE_ENABLE_UNLOCK_NOTIFY=1 -I/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700 -I/opt/local/include'
CXX='/usr/bin/clang++'
CXXCPP=''
CXXDEPMODE=''
CXXFLAGS='-pipe -O2 -arch x86_64 -arch i386'
CYGPATH_W='echo'
DEFS=''
DEPDIR='.deps'
DYNAMIC_EXTENSION_FLAGS=''
ECHO='/bin/echo'
ECHO_C='\c'
ECHO_N=''
ECHO_T=''
EGREP=''
EXEEXT=''
F77=''
FFLAGS='-pipe -O2'
GREP=''
INSTALL_DATA='${INSTALL} -m 644'
INSTALL_PROGRAM='${INSTALL}'
INSTALL_SCRIPT='${INSTALL}'
INSTALL_STRIP_PROGRAM='${SHELL} $(install_sh) -c -s'
LDFLAGS='-L/opt/local/lib -arch x86_64 -arch i386'
LIBOBJS=''
LIBS=''
LIBTOOL=''
LN_S=''
LTLIBOBJS=''
MAKEINFO='${SHELL} /opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700/missing --run makeinfo'
MKDIR_P=''
OBJEXT=''
PACKAGE='sqlite'
PACKAGE_BUGREPORT='http://www.sqlite.org'
PACKAGE_NAME='sqlite'
PACKAGE_STRING='sqlite 3.7.17'
PACKAGE_TARNAME='sqlite'
PACKAGE_URL=''
PACKAGE_VERSION='3.7.17'
PATH_SEPARATOR=':'
RANLIB=''
READLINE_LIBS=''
SET_MAKE=''
SHELL='/bin/sh'
STRIP=''
THREADSAFE_FLAGS=''
VERSION='3.7.17'
ac_ct_CC='/usr/bin/clang'
ac_ct_CXX=''
ac_ct_F77=''
am__fastdepCC_FALSE=''
am__fastdepCC_TRUE=''
am__fastdepCXX_FALSE=''
am__fastdepCXX_TRUE=''
am__include='include'
am__leading_dot='.'
am__quote=''
am__tar='${AMTAR} chof - "$$tardir"'
am__untar='${AMTAR} xf -'
bindir='${exec_prefix}/bin'
build=''
build_alias=''
build_cpu=''
build_os=''
build_vendor=''
datadir='${datarootdir}'
datarootdir='${prefix}/share'
docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
dvidir='${docdir}'
exec_prefix='NONE'
host=''
host_alias=''
host_cpu=''
host_os=''
host_vendor=''
htmldir='${docdir}'
includedir='${prefix}/include'
infodir='${datarootdir}/info'
install_sh='/opt/local/var/macports/build/_opt_local_var_macports_sources_rsync.macports.org_release_ports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700/install-sh'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localedir='${datarootdir}/locale'
localstatedir='${prefix}/var'
mandir='${datarootdir}/man'
mkdir_p='$(install_sh) -d'
oldincludedir='/usr/include'
pdfdir='${docdir}'
prefix='/opt/local'
program_transform_name='s,x,x,'
psdir='${docdir}'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
sysconfdir='${prefix}/etc'
target_alias=''

## ----------- ##
## confdefs.h. ##
## ----------- ##

/* confdefs.h */
#define PACKAGE_NAME "sqlite"
#define PACKAGE_TARNAME "sqlite"
#define PACKAGE_VERSION "3.7.17"
#define PACKAGE_STRING "sqlite 3.7.17"
#define PACKAGE_BUGREPORT "http://www.sqlite.org"
#define PACKAGE_URL ""
#define PACKAGE "sqlite"
#define VERSION "3.7.17"

configure: exit 77

[larryv (Lawrence Velázquez)]

Configuring works fine for me.

configure:3479: checking whether the C compiler works
configure:3501: /usr/bin/clang -pipe -Os -arch x86_64 -arch i386 -DSQLITE_ENABLE_COLUMN_METADATA=1 -DSQLITE_ENABLE_FTS3=1 -DSQLITE_ENABLE_RTREE=1 -DSQLITE_SECURE_DELETE=1 -DSQLITE_ENABLE_UNLOCK_NOTIFY=1 -I/opt/local/var/macports/build/_Users_larryv_Projects_MacPorts_trunk_dports_databases_sqlite3/sqlite3/work/sqlite-autoconf-3071700 -I/opt/local/include -L/opt/local/lib -Wl,-headerpad_max_install_names -arch x86_64 -arch i386 conftest.c  >&5
configure:3505: $? = 0
configure:3553: result: yes

Can your /usr/bin/clang build anything else?

[macports@…]

Replying to larryv@…:

Can your /usr/bin/clang build anything else?

I just tried to build a simple printf program, and got following error:

➜  ~  clang -v hello.c
Apple LLVM version 4.2 (clang-425.0.28) (based on LLVM 3.2svn)
Target: x86_64-apple-darwin12.3.0
Thread model: posix
 "/usr/bin/clang" -cc1 -triple x86_64-apple-macosx10.8.0 -emit-obj -mrelax-all -disable-free -disable-llvm-verifier -main-file-name hello.c -pic-level 2 -mdisable-fp-elim -masm-verbose -munwind-tables -target-cpu core2 -target-linker-version 136 -v -resource-dir /usr/bin/../lib/clang/4.2 -fmodule-cache-path /var/folders/d9/4nh7h8hd6tj_h0ym30zsdl7w0000gn/T/clang-module-cache -fdebug-compilation-dir /Users/martin -ferror-limit 19 -fmessage-length 272 -stack-protector 1 -mstackrealign -fblocks -fobjc-runtime=macosx-10.8.0 -fobjc-dispatch-method=mixed -fobjc-default-synthesize-properties -fdiagnostics-show-option -fcolor-diagnostics -o /var/folders/d9/4nh7h8hd6tj_h0ym30zsdl7w0000gn/T/hello-CkEC6C.o -x c hello.c
clang -cc1 version 4.2 based upon LLVM 3.2svn default target x86_64-apple-darwin12.3.0
#include "..." search starts here:
#include <...> search starts here:
 /usr/local/include
 /usr/bin/../lib/clang/4.2/include
 /usr/include
 /System/Library/Frameworks (framework directory)
 /Library/Frameworks (framework directory)
End of search list.
 "/usr/bin/ld" -demangle -dynamic -arch x86_64 -macosx_version_min 10.8.0 -o a.out /var/folders/d9/4nh7h8hd6tj_h0ym30zsdl7w0000gn/T/hello-CkEC6C.o -lSystem /usr/bin/../lib/clang/4.2/lib/darwin/libclang_rt.osx.a
ld: entry point (start) undefined.  Usually in crt1.o for architecture x86_64
clang: error: linker command failed with exit code 1 (use -v to see invocation)

Some linker problem?

[larryv (Lawrence Velázquez)]

Your Command Line Tools look broken. Try ​downloading them from Apple’s developer site and reinstalling.

[macports@…]

It worked! Thanks. Wondering how my CLT suddenly got nuked?!

[larryv (Lawrence Velázquez)]

Replying to macports@…:

It worked! Thanks. Wondering how my CLT suddenly got nuked?!

No idea. Computers suck. :(