INSTALL problem

[ranum]

Describe the bug When doing an install with pip install quickumls I get the following error

In file included from unqlite.c:22:
In file included from /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/include/python3.8/Python.h:11:
In file included from /Library/Developer/CommandLineTools/usr/lib/clang/12.0.0/include/limits.h:21:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/limits.h:63:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/cdefs.h:807:2: error: Unsupported architecture
#error Unsupported architecture
 ^
In file included from unqlite.c:22:
In file included from /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/include/python3.8/Python.h:11:
In file included from /Library/Developer/CommandLineTools/usr/lib/clang/12.0.0/include/limits.h:21:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/limits.h:64:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/machine/limits.h:8:2: error: architecture not supported
#error architecture not supported
 ^
In file included from unqlite.c:22:
In file included from /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/include/python3.8/Python.h:25:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h:27:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:33:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/machine/_types.h:34:2: error: architecture not supported
#error architecture not supported
 ^
In file included from unqlite.c:22:
In file included from /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/include/python3.8/Python.h:25:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/stdio.h:64:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_stdio.h:71:
In file included from /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/_types.h:27:
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:55:9: error: unknown type name '__int64_t'
typedef __int64_t       __darwin_blkcnt_t;      /* total blocks */
        ^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:56:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t       __darwin_blksize_t;     /* preferred block size */
        ^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:57:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t       __darwin_dev_t;         /* dev_t */
        ^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:60:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t      __darwin_gid_t;         /* [???] process and group IDs */
        ^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:61:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t      __darwin_id_t;          /* [XSI] pid_t, uid_t, or gid_t*/
        ^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:62:9: error: unknown type name '__uint64_t'
typedef __uint64_t      __darwin_ino64_t;       /* [???] Used for 64 bit inodes */
        ^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:68:9: error: unknown type name '__darwin_natural_t'
typedef __darwin_natural_t __darwin_mach_port_name_t; /* Used by mach */
        ^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:70:9: error: unknown type name '__uint16_t'; did you mean '__uint128_t'?
typedef __uint16_t      __darwin_mode_t;        /* [???] Some file attributes */
        ^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:71:9: error: unknown type name '__int64_t'
typedef __int64_t       __darwin_off_t;         /* [???] Used for file sizes */
        ^
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:72:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t       __darwin_pid_t;         /* [???] process and group IDs */
        ^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:73:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t      __darwin_sigset_t;      /* [???] signal set */
        ^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:74:9: error: unknown type name '__int32_t'; did you mean '__int128_t'?
typedef __int32_t       __darwin_suseconds_t;   /* [???] microseconds */
        ^
note: '__int128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:75:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t      __darwin_uid_t;         /* [???] user IDs */
        ^
note: '__uint128_t' declared here
/Library/Developer/CommandLineTools/SDKs/MacOSX.sdk/usr/include/sys/_types.h:76:9: error: unknown type name '__uint32_t'; did you mean '__uint128_t'?
typedef __uint32_t      __darwin_useconds_t;    /* [???] microseconds */
        ^
note: '__uint128_t' declared here
In file included from unqlite.c:22:

To Reproduce I just did a pip install like the instructions said

Environment mac

Additional context Add any other context about the problem here.

[soldni]

Hi David! Which OS/Python/C compiler version are you using? I seems that you might be trying to install QuickUMLS on a Mac, is it perhaps a M1-equipped Mac?

[ranum]

Hey, thanks for responding. I have a 2018 macbook pro (intel i7) running 10.15.7 (catalina) and python3.8. Maybe I misunderstood and you don't support mac??

[soldni]

on macOS, I would recommend installing inside an anaconda environment rather than using the built in python. After you install anaconda, install the following packages separately before pip installing QuickUMLS.

conda install -c conda-forge python-leveldb.

Installing QuickUMLS using the system python installation has proven tricky, so I don't support that at the moment. Please do let me know how it goes!

[ranum]

So, that helped a lot. I now have an environment where I can make calls to the matcher running against example text and seeing cuis, etc. coming back. Thanks-looks good. One additional question, have you done anything around standing this up as a service in the cloud or dockerizing/helm charting the process so it's not just running locally on my laptop?