diff --git a/japsa-1.5-6a.tar.gz b/japsa-1.5-6a.tar.gz deleted file mode 100644 index fdb5679..0000000 Binary files a/japsa-1.5-6a.tar.gz and /dev/null differ diff --git a/japsa-1.5-6a.zip b/japsa-1.5-6a.zip deleted file mode 100644 index e3a2297..0000000 Binary files a/japsa-1.5-6a.zip and /dev/null differ diff --git a/jsa.np.f5readerGUI.bat b/jsa.np.f5readerGUI.bat deleted file mode 100644 index 46507b1..0000000 --- a/jsa.np.f5readerGUI.bat +++ /dev/null @@ -1,22 +0,0 @@ -@echo off - -rem This batch file serves as a wrapper for several -rem JSA command line tools. - -if not "%JSA_HOME%" == "" goto gotjsaHome - -echo JSA requires an environment variable JSA_HOME. -goto :eof - -:gotjsaHome - -set JSA_MEM=7000m -set JSA_LIBS=%JSA_HOME%\lib\japsa\ -set JSA_CP=%JSA_LIBS%\japsa.jar;%JSA_LIBS%\commons-math3-3.0.jar;%JSA_LIBS%\sam-1.84.jar;%JSA_LIBS%\jhdf5.jar;%JSA_LIBS%\jhdfobj.jar;%JSA_LIBS%\htsjdk-1.126.jar;%JSA_LIBS%\jcommon-1.0.23.jar;%JSA_LIBS%\jfreechart-1.0.19.jar - -:run - -java -Xmx%JSA_MEM% -ea -Djava.awt.headless=true -Dfile.encoding=UTF-8 -server -Djava.library.path="%JHDF5_LIB%" -classpath %JSA_CP% japsa.seq.nanopore.NanoporeReaderStream --folder . -output output.fastq -fail --minLength 50 -GUI - -:eof - diff --git a/lib/japsa/colloquial.jar b/lib/japsa/colloquial.jar deleted file mode 100644 index 76d0898..0000000 Binary files a/lib/japsa/colloquial.jar and /dev/null differ diff --git a/lib/japsa/commons-math3-3.0.jar b/lib/japsa/commons-math3-3.0.jar deleted file mode 100644 index ff84bd2..0000000 Binary files a/lib/japsa/commons-math3-3.0.jar and /dev/null differ diff --git a/lib/japsa/htsjdk-1.126.jar b/lib/japsa/htsjdk-1.126.jar deleted file mode 100644 index cf0c02f..0000000 Binary files a/lib/japsa/htsjdk-1.126.jar and /dev/null differ diff --git a/lib/japsa/jaligner.jar b/lib/japsa/jaligner.jar deleted file mode 100644 index 145a976..0000000 Binary files a/lib/japsa/jaligner.jar and /dev/null differ diff --git a/lib/japsa/japsa.jar b/lib/japsa/japsa.jar deleted file mode 100644 index b71d23a..0000000 Binary files a/lib/japsa/japsa.jar and /dev/null differ diff --git a/lib/japsa/jcommon-1.0.23.jar b/lib/japsa/jcommon-1.0.23.jar deleted file mode 100644 index 4dbb094..0000000 Binary files a/lib/japsa/jcommon-1.0.23.jar and /dev/null differ diff --git a/lib/japsa/jfreechart-1.0.19.jar b/lib/japsa/jfreechart-1.0.19.jar deleted file mode 100644 index f931c5b..0000000 Binary files a/lib/japsa/jfreechart-1.0.19.jar and /dev/null differ diff --git a/lib/japsa/jhdf5.jar b/lib/japsa/jhdf5.jar deleted file mode 100644 index eaf6e08..0000000 Binary files a/lib/japsa/jhdf5.jar and /dev/null differ diff --git a/lib/japsa/jhdfobj.jar b/lib/japsa/jhdfobj.jar deleted file mode 100644 index f1fbb7e..0000000 Binary files a/lib/japsa/jhdfobj.jar and /dev/null differ diff --git a/lib/japsa/sam-1.84.jar b/lib/japsa/sam-1.84.jar deleted file mode 100644 index 56e4920..0000000 Binary files a/lib/japsa/sam-1.84.jar and /dev/null differ