Hi,
I commited the packaging for last IGV to Git but it fails to build:
compile:
[javac] /tmp/buildd/igv-2.3.34+dfsg/build.xml:175: warning:
'includeantruntime' was not set, defaulting to build.sysclasspath=last; set to
false for repeatable builds
[javac] Compiling 864 source files to /tmp/buildd/igv-2.3.34+dfsg/tmp
[javac] warning: [options] bootstrap class path not set in conjunction with
-source 1.6
[javac]
/tmp/buildd/igv-2.3.34+dfsg/src/org/broad/igv/sam/SAMWriter.java:58: error:
BAMFileWriter is not public in net.sf.samtools; cannot be accessed from outside
package
[javac] writer = new BAMFileWriter(stream, null);
[javac] ^
[javac] Note: Some input files use or override a deprecated API.
[javac] Note: Recompile with -Xlint:deprecation for details.
[javac] Note: Some input files use unchecked or unsafe operations.
[javac] Note: Recompile with -Xlint:unchecked for details.
[javac] 1 error
[javac] 1 warning
BUILD FAILED
I guess for a Java-knowledged person this is easy to fix but I have no
idea how. I also have the impression we could extend our
"Files-Excluded" to some more JARs which are distributed with IGV
source.
Feel free to fix and upload the package (or just commit a fix to Git and
tell me to upload)
Andreas.
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