Hello,
I wanted to install GEOquery package in my workspace (home dir) on a server. To do so, I created a directory 

R/x86_64-redhat-linux-gnu-library/2.14

and used the following scripts 


 source("http://bioconductor.org/biocLite.R")
biocLite("GEOquery",suppressUpdates=T)

But got a long list of error that you could see below.

it seems that I can't install locally 

Warning: R include directory is empty -- perhaps need to install R-devel.rpm or similar 


but there must be a way.


Thx

Carol
-----------------------------------------------------------

Minor 6, Patch 26 for 2.6.26
Located parser file -I/usr/include/libxml2/parser.h
Checking for 1.8:  -DR_HAS_REMOVE_FINALIZERS=1 -I/usr/include/libxml2
Using libxml2.*
checking for gzopen in -lz... yes
checking for xmlParseFile in -lxml2... yes
checking for xmlHashSize in -lxml2... yes
Using built-in xmlHashSize
Checking DTD parsing (presence of externalSubset)...
checking for xmlHashSize in -lxml2... yes
Found xmlHashSize
checking for xmlOutputBufferCreateBuffer in -lxml2... yes
have xmlOutputBufferCreateBuffer()
checking for xmlDocDumpFormatMemoryEnc in -lxml2... yes
checking libxml/xmlversion.h usability... yes
checking libxml/xmlversion.h presence... yes
checking for libxml/xmlversion.h... yes
Expat:  FALSE
Checking for return type of xmlHashScan element routine.
No return value for xmlHashScan
No context field in xmlNs structure.
Checking for cetype_t enumeration
No cetype_t enumeration defined in R headers.
checking for xmlsec1-config... no
nodegc default 
No XML_WITH_ZLIB enumeration value.
Version has xmlHasFeature()

****************************************
Configuration information:

Libxml settings

libxml include directory: -I/usr/include/libxml2
libxml library directory: -lxml2 -lz -lm -lz  -lxml2
libxml 2:                 -DLIBXML2=1

Compilation flags:         -DR_HAS_REMOVE_FINALIZERS=1 -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DNO_CHECKED_ENTITY_FIELD=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1  -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1 
Link flags:               -lxml2 -lz -lm -lz  -lxml2

****************************************
configure: creating ./config.status
config.status: creating src/Makevars
config.status: creating R/supports.R
config.status: creating inst/scripts/RSXML.csh
config.status: creating inst/scripts/RSXML.bsh
** libs
Warning: R include directory is empty -- perhaps need to install R-devel.rpm or similar
gcc -m64 -std=gnu99 -I/software/R/2.14/include/R -DR_HAS_REMOVE_FINALIZERS=1 -DLIBXML -I/usr/include/libxml2 -DUSE_EXTERNAL_SUBSET=1 -DROOT_HAS_DTD_NODE=1 -DNO_CHECKED_ENTITY_FIELD=1 -DDUMP_WITH_ENCODING=1 -DUSE_XML_VERSION_H=1 -DXML_ELEMENT_ETYPE=1 -DXML_ATTRIBUTE_ATYPE=1 -DNO_XML_HASH_SCANNER_RETURN=1 -DHAVE_XML_HAS_FEATURE=1 -DUSE_R=1 -D_R_=1  -DHAVE_VALIDITY=1 -DXML_REF_COUNT_NODES=1  -I. -DLIBXML2=1 -I/usr/local/include    -fpic  -O2 -g -pipe -Wall -Wp,-D_FORTIFY_SOURCE=2 -fexceptions -fstack-protector --param=ssp-buffer-size=4 -m64 -mtune=generic -c DocParse.c -o DocParse.o
In file included from DocParse.h:11,
                 from DocParse.c:10:
RSCommon.h:54:26: error: Rinternals.h: No such file or directory
RSCommon.h:55:24: error: Rdefines.h: No such file or directory
In file included from DocParse.h:11,
                 from DocParse.c:10:
RSCommon.h:70: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘USER_OBJECT_’
RSCommon.h:72:24: error: Rversion.h: No such file or directory
RSCommon.h:73:28: error: missing binary operator before token "("
RSCommon.h:81:29: error: R_ext/Boolean.h: No such file or directory
In file included from DocParse.h:13,
                 from DocParse.c:10:
RS_XML.h:32:15: error: R.h: No such file or directory
In file included from DocParse.c:10:
DocParse.h:26: error: expected specifier-qualifier-list before ‘USER_OBJECT_’
DocParse.h:42: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_convertXMLDoc’
DocParse.h:44: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_AttributeList’
DocParse.h:45: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createNodeChildren’
DocParse.h:47: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_lookupGenericNodeConverter’
DocParse.h:50: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createNameSpaceIdentifier’
DocParse.h:52: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlXIncludeProcessFlags’
DocParse.h:54: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘processNamespaceDefinitions’
In file included from DocParse.c:13:
Utils.h:24: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_invokeFunction’
Utils.h:25: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_findFunction’
Utils.h:27: error: expected declaration specifiers or ‘...’ before ‘USER_OBJECT_’
Utils.h:28: error: expected declaration specifiers or ‘...’ before ‘USER_OBJECT_’
Utils.h:30: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_makeRefObject’
Utils.h:50: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_RecursiveApply’
Utils.h:51: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_HtmlParseTree’
Utils.h:55: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_getDTD’
Utils.h:57: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_libxmlVersion’
Utils.h:61: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_Parse’
Utils.h:75: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_ParseTree’
Utils.h:84: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_newXMLDtd’
Utils.h:85: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_newXMLDoc’
Utils.h:87: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_newXMLNode’
Utils.h:88: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_newXMLTextNode’
Utils.h:89: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlNewComment’
Utils.h:90: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_newXMLCDataNode’
Utils.h:91: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_newXMLPINode’
Utils.h:92: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlNewNs’
Utils.h:93: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlSetNs’
Utils.h:94: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_insertXMLNode’
Utils.h:95: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_saveXMLDOM’
Utils.h:99: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeNumChildren’
Utils.h:101: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_createXMLNodeRef’
Utils.h:102: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_createXMLDocRef’
Utils.h:104: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlCatalogResolve’
Utils.h:106: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_setDoc’
Utils.h:107: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_unsetDoc’
Utils.h:109: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_printXMLNode’
Utils.h:111: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_dumpHTMLDoc’
Utils.h:113: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_removeChildren’
Utils.h:115: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_clone’
Utils.h:117: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlRootNode’
Utils.h:118: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xpathEval’
Utils.h:121: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeChildrenReferences’
Utils.h:124: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_internalNodeNamespaceDefinitions’
Utils.h:126: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_getDefaultValiditySetting’
Utils.h:128: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_freeDoc’
Utils.h:129: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_setRootNode’
Utils.h:130: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_getNodeChildByIndex’
Utils.h:131: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_setDocEl’
Utils.h:132: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_isDescendantOf’
Utils.h:133: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_getStructuredErrorHandler’
Utils.h:134: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_setStructuredErrorHandler’
Utils.h:135: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_convertDOMToHashTree’
Utils.h:136: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_parseURI’
Utils.h:137: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_getXMLFeatures’
Utils.h:138: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlReadMemory’
Utils.h:139: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlReadFile’
Utils.h:140: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_libxmlTypeTable_names’
Utils.h:141: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_libxmlTypeTable_lookup’
Utils.h:142: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlSchemaValidateDoc’
Utils.h:143: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_XML_indexOfChild’
Utils.h:144: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlStopParser’
Utils.h:145: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_clearNodeMemoryManagement’
Utils.h:146: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_XMLInternalDocument_free’
Utils.h:147: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_addXMLInternalDocument_finalizer’
Utils.h:148: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_createXMLNode’
Utils.h:149: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeName’
Utils.h:150: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeNamespace’
Utils.h:151: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeAttributes’
Utils.h:152: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlNodeValue’
Utils.h:153: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_setXMLInternalTextNode_value’
Utils.h:154: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeParent’
Utils.h:155: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_getXMLNsRef’
Utils.h:156: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_setXMLInternalTextNode_noenc’
Utils.h:157: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_isNodeChildOfAt’
Utils.h:158: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_findXIncludeStartNodes’
Utils.h:159: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_removeAllNodeNamespaces’
Utils.h:160: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_removeNodeNamespaces’
Utils.h:161: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_matchNodesInList’
Utils.h:162: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_copyNodesToDoc’
Utils.h:163: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_getDocumentName’
Utils.h:164: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlXIncludeProcessFlags’
Utils.h:165: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlXIncludeProcessTreeFlags’
Utils.h:166: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_internalNodeNamespaceDefinitions’
Utils.h:169: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_isInstanceOf’
Utils.h:170: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_addNodeAttributes’
Utils.h:171: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_removeNodeAttributes’
Utils.h:172: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_getNsList’
Utils.h:174: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_setNodeName’
Utils.h:175: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlNsAsCharacter’
Utils.h:178: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_createXMLNsRef’
Utils.h:179: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_getNextSibling’
Utils.h:181: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_getXMLNodeDocument’
Utils.h:182: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createDocFromNode’
Utils.h:184: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_removeInternalNode’
Utils.h:186: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_replaceXMLNode’
Utils.h:189: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlAddSiblingAt’
Utils.h:191: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_clearCatalog’
Utils.h:192: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_loadCatalog’
Utils.h:193: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_catalogAdd’
Utils.h:194: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_catalogDump’
Utils.h:196: error: expected ‘)’ before ‘ref’
Utils.h:198: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_setDocumentName’
Utils.h:200: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_setKeepBlanksDefault’
Utils.h:203: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_setNS’
Utils.h:206: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘stop’
Utils.h:207: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RSXML_structuredStop’
Utils.h:212: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_getDocEncoding’
Utils.h:213: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_getLineNumber’
Utils.h:215: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_addXMLNodeFinalizer’
Utils.h:220: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘CreateCharSexpWithEncoding’
In file included from DocParse.c:13:
Utils.h:230:2: warning: #warning "Redefining COPY_TO_USER_STRING to use encoding from XML parser"
Utils.h:239:25: error: R_ext/Utils.h: No such file or directory
Utils.h:246: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_createXMLNodeRefDirect’
Utils.h:247: error: expected ‘)’ before ‘user’
In file included from DocParse.c:20:
RSDTD.h:32: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createDTDElement’
RSDTD.h:33: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createDTDElementContents’
RSDTD.h:34: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createDTDElementAttributes’
RSDTD.h:35: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createDTDAttribute’
RSDTD.h:37: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_AttributeEnumerationList’
RSDTD.h:40: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_SequenceContent’
RSDTD.h:42: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_ProcessElements’
RSDTD.h:43: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_ProcessEntities’
RSDTD.h:44: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createDTDEntity’
RSDTD.h:46: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createDTDParts’
RSDTD.h:48: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_ConstructDTDList’
DocParse.c:30: error: expected declaration specifiers or ‘...’ before ‘USER_OBJECT_’
DocParse.c:31: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_notifyNamespaceDefinition’
DocParse.c:38: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘convertNode’
DocParse.c:39: error: expected declaration specifiers or ‘...’ before ‘USER_OBJECT_’
DocParse.c:42: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘makeSchemaReference’
DocParse.c:47: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_libxmlVersionRuntime’
DocParse.c:54: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_getDefaultValiditySetting’
DocParse.c: In function ‘R_xmlStructuredErrorHandler’:
DocParse.c:78: warning: implicit declaration of function ‘RSXML_structuredStop’
DocParse.c:78: error: ‘SEXP’ undeclared (first use in this function)
DocParse.c:78: error: (Each undeclared identifier is reported only once
DocParse.c:78: error: for each function it appears in.)
DocParse.c:78: error: expected ‘)’ before ‘data’
DocParse.c: At top level:
DocParse.c:106: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_ParseTree’
DocParse.c:314: error: expected declaration specifiers or ‘...’ before ‘USER_OBJECT_’
DocParse.c: In function ‘NodeTraverse’:
DocParse.c:320: error: ‘USER_OBJECT_’ undeclared (first use in this function)
DocParse.c:320: error: expected ‘;’ before ‘ref’
DocParse.c:327: error: ‘converterFunctions’ undeclared (first use in this function)
DocParse.c:327: error: too many arguments to function ‘NodeTraverse’
DocParse.c:328: warning: implicit declaration of function ‘PROTECT’
DocParse.c:328: error: ‘ref’ undeclared (first use in this function)
DocParse.c:328: warning: implicit declaration of function ‘R_createXMLNodeRef’
DocParse.c:328: error: ‘R_XMLSettings’ has no member named ‘finalize’
DocParse.c:329: warning: implicit declaration of function ‘convertNode’
DocParse.c:330: warning: implicit declaration of function ‘UNPROTECT’
DocParse.c: At top level:
DocParse.c:346: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_convertXMLDoc’
DocParse.c:405: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘processNamespaceDefinitions’
DocParse.c:448: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘getNamespaceDefs’
DocParse.c:493: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_internalNodeNamespaceDefinitions’
DocParse.c:507: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createXMLNode’
DocParse.c:633: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘convertNode’
DocParse.c:672: error: expected declaration specifiers or ‘...’ before ‘USER_OBJECT_’
DocParse.c: In function ‘RS_XML_setNodeClass’:
DocParse.c:707: error: ‘USER_OBJECT_’ undeclared (first use in this function)
DocParse.c:707: error: expected ‘;’ before ‘Class’
DocParse.c:709: error: ‘Class’ undeclared (first use in this function)
DocParse.c:709: warning: implicit declaration of function ‘NEW_CHARACTER’
DocParse.c:711: warning: implicit declaration of function ‘SET_STRING_ELT’
DocParse.c:711: warning: implicit declaration of function ‘mkChar’
DocParse.c:715: warning: implicit declaration of function ‘SET_CLASS’
DocParse.c:715: error: ‘ans’ undeclared (first use in this function)
DocParse.c: At top level:
DocParse.c:731: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createNameSpaceIdentifier’
DocParse.c:775: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_lookupGenericNodeConverter’
DocParse.c:828: error: expected declaration specifiers or ‘...’ before ‘SEXP’
DocParse.c:828: error: expected declaration specifiers or ‘...’ before ‘SEXP’
DocParse.c: In function ‘addNodeAndChildrenToTree’:
DocParse.c:830: error: ‘SEXP’ undeclared (first use in this function)
DocParse.c:830: error: expected ‘;’ before ‘tmp’
DocParse.c:837: error: ‘tmp’ undeclared (first use in this function)
DocParse.c:837: warning: implicit declaration of function ‘RS_XML_createXMLNode’
DocParse.c:837: error: ‘R_NilValue’ undeclared (first use in this function)
DocParse.c:840: warning: implicit declaration of function ‘SETCAR’
DocParse.c:840: warning: implicit declaration of function ‘CDR’
DocParse.c:840: error: ‘e’ undeclared (first use in this function)
DocParse.c:843: error: ‘id’ undeclared (first use in this function)
DocParse.c:843: warning: implicit declaration of function ‘Rf_eval’
DocParse.c:843: error: ‘R_GlobalEnv’ undeclared (first use in this function)
DocParse.c:850: error: too many arguments to function ‘addNodeAndChildrenToTree’
DocParse.c: At top level:
DocParse.c:861: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘addNodesToTree’
DocParse.c:904: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_createNodeChildren’
DocParse.c:984: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_notifyNamespaceDefinition’
DocParse.c:1009: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_libxmlVersion’
DocParse.c:1033: error: expected declaration specifiers or ‘...’ before ‘Rboolean’
DocParse.c: In function ‘notifyError’:
DocParse.c:1048: warning: implicit declaration of function ‘memset’
DocParse.c:1048: warning: incompatible implicit declaration of built-in function ‘memset’
DocParse.c:1051: warning: implicit declaration of function ‘Rf_warning’
DocParse.c: In function ‘RS_XML_ValidationError’:
DocParse.c:1069: warning: implicit declaration of function ‘strcmp’
DocParse.c:1073: error: ‘TRUE’ undeclared (first use in this function)
DocParse.c:1073: error: too many arguments to function ‘notifyError’
DocParse.c: In function ‘RS_XML_ValidationWarning’:
DocParse.c:1087: error: ‘FALSE’ undeclared (first use in this function)
DocParse.c:1087: error: too many arguments to function ‘notifyError’
DocParse.c: At top level:
DocParse.c:1092: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_createXMLNode’
DocParse.c:1107: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeName’
DocParse.c:1122: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeNamespace’
DocParse.c:1150: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeAttributes’
DocParse.c:1164: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeParent’
DocParse.c:1174: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeNumChildren’
DocParse.c:1189: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlNodeChildrenReferences’
DocParse.c:1222: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_getNodeChildByIndex’
DocParse.c:1246: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘makeSchemaReference’
DocParse.c:1266: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_setDocumentName’
DocParse.c:1288: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_getDocumentName’
DocParse.c:1311: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_setKeepBlanksDefault’
DocParse.c:1320: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlXIncludeProcessFlags’
DocParse.c:1330: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_xmlXIncludeProcessTreeFlags’
DocParse.c:1385: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘RS_XML_AttributeList’
DocParse.c:1475: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_getDocEncoding’
DocParse.c:1498: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_getLineNumber’
DocParse.c:1511: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlReadFile’
DocParse.c:1528: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_xmlReadMemory’
DocParse.c:1553: error: expected declaration specifiers or ‘...’ before ‘SEXP’
DocParse.c:1553: error: expected declaration specifiers or ‘...’ before ‘SEXP’
DocParse.c: In function ‘addXInclude’:
DocParse.c:1556: warning: implicit declaration of function ‘Rf_length’
DocParse.c:1556: error: ‘ans’ undeclared (first use in this function)
DocParse.c:1557: warning: implicit declaration of function ‘SET_LENGTH’
DocParse.c:1558: warning: implicit declaration of function ‘SET_VECTOR_ELT’
DocParse.c:1558: error: ‘manageMemory’ undeclared (first use in this function)
DocParse.c: At top level:
DocParse.c:1566: error: expected declaration specifiers or ‘...’ before ‘SEXP’
DocParse.c:1566: error: expected declaration specifiers or ‘...’ before ‘SEXP’
DocParse.c: In function ‘processKids’:
DocParse.c:1572: error: ‘ans’ undeclared (first use in this function)
DocParse.c:1572: error: ‘manageMemory’ undeclared (first use in this function)
DocParse.c:1572: error: too many arguments to function ‘addXInclude’
DocParse.c:1573: error: too many arguments to function ‘processKids’
DocParse.c: At top level:
DocParse.c:1607: error: expected ‘=’, ‘,’, ‘;’, ‘asm’ or ‘__attribute__’ before ‘R_findXIncludeStartNodes’
make: *** [DocParse.o] Error 1
ERROR: compilation failed for package ‘XML’
	[[alternative HTML version deleted]]

