external/dbio/sqlite3/sqlite3.c: Errors

Dear all, I keep having problems compiling Rosetta 3.5 on our university cluster. First, I edited site.settings so scons finds mpicc and mpicxx

import os

settings = {

"site" : {

"prepends" : {

"program_path" : os.environ["PATH"].split(":"),

"include_path" : os.environ["INCLUDE"].split(":"),

"library_path" : os.environ["LD_LIBRARY_PATH"].split(":"),

},

"appends" : {

},

"overrides" : {

"cxx": "/opt/openmpi/1.7.3/gcc/bin/mpicxx",

"cc": "/opt/openmpi/1.7.3/gcc/bin/mpiCC",

},

"removes" : {

},

},

}

Now when compiling with gcc (./scons.py mode= release extras=mpi bin) after some minutes I get the following error:

external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:98610: error: invalid use of incomplete type 'sruct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:98613: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:98614: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:98617: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c: In function 'Bitmask codeOneLoopStart(WhereInfo*, int, u16, Bitmask)': external/dbio/sqlite3/sqlite3.c:98691: error: cannot convert 'SrcList::SrcList_item*' to 'SrcList_item*' in assignment external/dbio/sqlite3/sqlite3.c:98692: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:98714: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:98714: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:98729: error: cannot convert 'sqlite3_index_info::sqlite3_index_constraint_usage*' to 'sqlite3_index_constraint_usage*' in initialization external/dbio/sqlite3/sqlite3.c:98731: error: cannot convert 'sqlite3_index_info::sqlite3_index_constraint*' to 'const sqlite3_index_constraint*' in initialization external/dbio/sqlite3/sqlite3.c:98737: error: invalid use of incomplete type 'struct sqlite3_index_constraint_usage' external/dbio/sqlite3/sqlite3.c:98728: error: forward declaration of 'struct sqlite3_index_constraint_usage' external/dbio/sqlite3/sqlite3.c:98737: error: invalid use of incomplete type 'struct sqlite3_index_constraint_usage' external/dbio/sqlite3/sqlite3.c:98728: error: forward declaration of 'struct sqlite3_index_constraint_usage' external/dbio/sqlite3/sqlite3.c:98738: error: invalid use of incomplete type 'struct sqlite3_index_constraint' external/dbio/sqlite3/sqlite3.c:98730: error: forward declaration of 'struct sqlite3_index_constraint' external/dbio/sqlite3/sqlite3.c:98738: error: invalid use of incomplete type 'const struct sqlite3_index_constraint' external/dbio/sqlite3/sqlite3.c:98730: error: forward declaration of 'const struct sqlite3_index_constraint' external/dbio/sqlite3/sqlite3.c:98751: error: invalid use of incomplete type 'struct sqlite3_index_constraint_usage' external/dbio/sqlite3/sqlite3.c:98728: error: forward declaration of 'struct sqlite3_index_constraint_usage' external/dbio/sqlite3/sqlite3.c:98751: error: invalid use of incomplete type 'struct sqlite3_index_constraint_usage' external/dbio/sqlite3/sqlite3.c:98728: error: forward declaration of 'struct sqlite3_index_constraint_usage' external/dbio/sqlite3/sqlite3.c:98752: error: invalid use of incomplete type 'struct sqlite3_index_constraint' external/dbio/sqlite3/sqlite3.c:98730: error: forward declaration of 'struct sqlite3_index_constraint' external/dbio/sqlite3/sqlite3.c:98752: error: invalid use of incomplete type 'const struct sqlite3_index_constraint' external/dbio/sqlite3/sqlite3.c:98730: error: forward declaration of 'const struct sqlite3_index_constraint' external/dbio/sqlite3/sqlite3.c:99161: error: invalid conversion from 'void*' to 'SrcList*' external/dbio/sqlite3/sqlite3.c:99166: error: invalid application of 'sizeof' to incomplete type 'SrcList_item' external/dbio/sqlite3/sqlite3.c:99167: error: cannot convert 'SrcList::SrcList_item [1]' to 'SrcList_item*' in assignment external/dbio/sqlite3/sqlite3.c:99169: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99208: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c: In function 'WhereInfo* sqlite3WhereBegin(Parse*, SrcList*, Expr*, ExprList**, u16)': external/dbio/sqlite3/sqlite3.c:99486: error: invalid conversion from 'void*' to 'WhereInfo*' external/dbio/sqlite3/sqlite3.c:99584: error: cannot convert 'SrcList::SrcList_item [1]' to 'SrcList_item*' in assignment external/dbio/sqlite3/sqlite3.c:99649: error: cannot convert 'SrcList::SrcList_item*' to 'SrcList_item*' in assignment external/dbio/sqlite3/sqlite3.c:99649: error: cannot increment a pointer to incomplete type 'SrcList_item' external/dbio/sqlite3/sqlite3.c:99654: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99656: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99663: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99669: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99714: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99803: error: cannot convert 'SrcList::SrcList_item*' to 'SrcList_item*' in assignment external/dbio/sqlite3/sqlite3.c:99804: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99805: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99814: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99821: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99825: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:99829: error: invalid conversion from 'void*' to 'const char*' external/dbio/sqlite3/sqlite3.c:99829: error: initializing argument 3 of 'void sqlite3VdbeChangeP4(Vdbe*, int, const char*, int)' external/dbio/sqlite3/sqlite3.c:99851: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c: In function 'void sqlite3WhereEnd(WhereInfo*)': external/dbio/sqlite3/sqlite3.c:99957: error: cannot convert 'WhereLevel::::::InLoop*' to 'InLoop*' in assignment external/dbio/sqlite3/sqlite3.c:99957: error: cannot decrement a pointer to incomplete type 'InLoop' external/dbio/sqlite3/sqlite3.c:99958: error: invalid use of incomplete type 'struct InLoop' external/dbio/sqlite3/sqlite3.c:99954: error: forward declaration of 'struct InLoop' external/dbio/sqlite3/sqlite3.c:99959: error: invalid use of incomplete type 'struct InLoop' external/dbio/sqlite3/sqlite3.c:99954: error: forward declaration of 'struct InLoop' external/dbio/sqlite3/sqlite3.c:99959: error: invalid use of incomplete type 'struct InLoop' external/dbio/sqlite3/sqlite3.c:99954: error: forward declaration of 'struct InLoop' external/dbio/sqlite3/sqlite3.c:99960: error: invalid use of incomplete type 'struct InLoop' external/dbio/sqlite3/sqlite3.c:99954: error: forward declaration of 'struct InLoop' external/dbio/sqlite3/sqlite3.c:99994: error: cannot convert 'SrcList::SrcList_item*' to 'SrcList_item*' in initialization external/dbio/sqlite3/sqlite3.c:99995: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:100003: error: invalid use of incomplete type 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c:10825: error: forward declaration of 'struct SrcList_item' external/dbio/sqlite3/sqlite3.c: At global scope: external/dbio/sqlite3/sqlite3.c:100099: error: expected unqualified-id before '!' token external/dbio/sqlite3/sqlite3.c: In function 'void yy_reduce(yyParser*, int)': external/dbio/sqlite3/sqlite3.c:102478: error: invalid conversion from 'void*' to 'SrcList*' external/dbio/sqlite3/sqlite3.c:102762: error: expected unqualified-id before '!' token external/dbio/sqlite3/sqlite3.c:102762: error: expected ';' before '!' token external/dbio/sqlite3/sqlite3.c:102766: error: expected unqualified-id before '!' token external/dbio/sqlite3/sqlite3.c:102766: error: expected ';' before '!' token external/dbio/sqlite3/sqlite3.c:102774: error: expected unqualified-id before '!' token external/dbio/sqlite3/sqlite3.c:102774: error: expected ')' before '!' token external/dbio/sqlite3/sqlite3.c:102787: error: expected unqualified-id before '!' token external/dbio/sqlite3/sqlite3.c:102787: error: expected ')' before '!' token external/dbio/sqlite3/sqlite3.c: In function 'int sqlite3_complete16(const void*)': external/dbio/sqlite3/sqlite3.c:104562: error: invalid conversion from 'const void*' to 'const char*' external/dbio/sqlite3/sqlite3.c: At global scope: external/dbio/sqlite3/sqlite3.c:104737: error: redefinition of 'char* sqlite3_temp_directory' external/dbio/sqlite3/sqlite3.c:4585: error: 'char* sqlite3_temp_directory' previously declared here external/dbio/sqlite3/sqlite3.c: In function 'int createCollation(sqlite3*, const char*, u8, u8, void*, int (*)(void*, int, const void*, int, const void*), void(*)(void*))': external/dbio/sqlite3/sqlite3.c:106252: error: invalid conversion from 'void*' to 'CollSeq*' external/dbio/sqlite3/sqlite3.c: In function 'int openDatabase(const char*, sqlite3**, unsigned int, const char*)': external/dbio/sqlite3/sqlite3.c:106456: error: invalid conversion from 'void*' to 'sqlite3*' external/dbio/sqlite3/sqlite3.c:106540: warning: deprecated conversion from string constant to 'char*' external/dbio/sqlite3/sqlite3.c:106542: warning: deprecated conversion from string constant to 'char*' external/dbio/sqlite3/sqlite3.c: In function 'int sqlite3_open16(const void*, sqlite3**)': external/dbio/sqlite3/sqlite3.c:106672: error: invalid conversion from 'const void*' to 'const char*' scons: *** [build/external/release/linux/2.6/64/x86/gcc/4.4/mpi/dbio/sqlite3/sqlite3.os] Error 1 scons: building terminated because of errors.

Actually this is not the whole error log but the last part of it. Could you help me with this one?

Regards, Jan