Package: arji

Version: 0.3.15

Command: /loc/biocbuild/bbs-2.1-bioc/R/bin/R CMD build arji

RetCode: 0

Time: 20.4 seconds

Status: OK

PackageFile: arji_0.3.15.tar.gz

* checking for file 'arji/DESCRIPTION' ... OK
* preparing 'arji':
* checking DESCRIPTION meta-information ... OK
* cleaning src
Makefile:1: Makevars: No such file or directory
make: *** No rule to make target `Makevars'.  Stop.
* installing the package to re-build vignettes
* Installing *source* package 'arji' ...
configure: creating ./config.status
config.status: creating src/Makevars
** libs
** arch - 
/usr/lib/jvm/java/bin/javac ../inst/java/*.java
/loc/biocbuild/bbs-2.1-bioc/R/bin/R CMD SHLIB arji.c
make[1]: Entering directory `/extra/loc/biocbuild/bbs-2.1-bioc/meat/arji/src'
gcc -std=gnu99 -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/loc/biocbuild/bbs-2.1-bioc/R/include -I/usr/lib/jvm/java/include -I/usr/lib/jvm/java/include/linux  -I/usr/local/include    -fpic  -g -O2 -Wall -c arji.c -o arji.o
arji.c: In function `arji_destroyJavaVM':
arji.c:144: warning: unused variable `kill'
arji.c: In function `arji_getJavaClass':
arji.c:168: warning: dereferencing type-punned pointer will break strict-aliasing rules
arji.c:160: warning: unused variable `mid'
arji.c:161: warning: unused variable `stringClass'
arji.c:162: warning: unused variable `args'
arji.c:163: warning: unused variable `jstr'
arji.c: In function `arji_getJavaStaticMethodID':
arji.c:194: warning: dereferencing type-punned pointer will break strict-aliasing rules
arji.c: In function `arji_getJavaNonstaticMethodID':
arji.c:223: warning: dereferencing type-punned pointer will break strict-aliasing rules
arji.c: In function `arji_getJavaStaticFieldID':
arji.c:252: warning: dereferencing type-punned pointer will break strict-aliasing rules
arji.c: In function `arji_getJavaFieldID':
arji.c:287: warning: dereferencing type-punned pointer will break strict-aliasing rules
arji.c: In function `arji_createJVM':
arji.c:328: warning: dereferencing type-punned pointer will break strict-aliasing rules
arji.c:316: warning: unused variable `JNIenvRef'
arji.c:316: warning: unused variable `JVMRef'
arji.c:316: warning: unused variable `outenv'
arji.c: In function `arji_callJNIArgable':
arji.c:388: warning: dereferencing type-punned pointer will break strict-aliasing rules
arji.c:618: warning: unsigned int format, jobject arg (arg 2)
arji.c:619: warning: unsigned int format, pointer arg (arg 2)
arji.c: In function `arji_getJavaStaticField':
arji.c:680: warning: dereferencing type-punned pointer will break strict-aliasing rules
arji.c: In function `arji_getJavaField':
arji.c:849: warning: dereferencing type-punned pointer will break strict-aliasing rules
arji.c:840: warning: unused variable `cls'
arji.c: In function `convertJavaString':
arji.c:1023: warning: dereferencing type-punned pointer will break strict-aliasing rules
arji.c:1012: warning: unused variable `cls'
arji.c:1013: warning: unused variable `mid'
arji.c:1014: warning: unused variable `result'
arji.c: In function `convertJavaObject':
arji.c:1057: warning: unsigned int format, pointer arg (arg 2)
arji.c:1065: warning: control reaches end of non-void function
arji.c: In function `arji_getJavaField':
arji.c:1003: warning: control reaches end of non-void function
arji.c: In function `arji_getJavaStaticField':
arji.c:834: warning: control reaches end of non-void function
arji.c: In function `arji_callJNIArgable':
arji.c:353: warning: `obj' might be used uninitialized in this function
arji.c: At top level:
arji.c:66: warning: `JavaMethod_type_tag' defined but not used
gcc -std=gnu99 -shared -L/usr/local/lib -o arji.so arji.o -L/usr/lib/jvm/java/jre/lib/amd64 -L/usr/lib/jvm/java/jre/lib/i386 -ljava -L/usr/lib/jvm/java/jre/lib/amd64/server -L/usr/lib/jvm/java/jre/lib/i386/client -ljvm  -L/loc/biocbuild/bbs-2.1-bioc/R/lib -lR
make[1]: Leaving directory `/extra/loc/biocbuild/bbs-2.1-bioc/meat/arji/src'
** R
** inst
** help
 >>> Building/Updating help pages for package 'arji'
     Formats: text html latex example 
  JavaVMRef-class                   text    html    latex   example
  createJVM                         text    html    latex   example
  reflect                           text    html    latex   example
** building package indices ...
* DONE (arji)
* creating vignettes ... OK
* cleaning src
echo "nothing to clean"
nothing to clean
* removing junk files
* checking for LF line-endings in source files
* checking for empty or unneeded directories
* building 'arji_0.3.15.tar.gz'