===========================================================
                                      .___ __  __   
          _________________  __ __  __| _/|__|/  |_ 
         / ___\_` __ \__  \ |  |  \/ __ | | \\_  __\
        / /_/  >  | \// __ \|  |  / /_/ | |  ||  |  
        \___  /|__|  (____  /____/\____ | |__||__|  
       /_____/            \/           \/           
              grep rough audit - static analysis tool
                  v2.8 written by @Wireghoul
=================================[justanotherhacker.com]===
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted-135-	# convert to tabular input format
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted:136:	#`ruby ../ruby/blast_file_parser_concatfiles.rb $outfile_path.blastresults > $outfile_path.tabularresults`;
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted-137-	{
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted-146-	print "-> jumpstarting from BLAST results!\n";
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted:147:	#`ruby ../ruby/blast_file_parser_concatfiles.rb $jumpstart > $outfile_path.tabularresults`;
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted-148-	{
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted-180-
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted:181:#my $predictor_out = `cd ..; java -jar pp2.jar pp2.prediction.knn.KNNPredictor -i $outfile_path.tabularresults -o $outfile_path.raw $knn -d $distribution -c $closure -t $goterms`;
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted-182-
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted-236-print `@cmd`; if($?){ confess("@cmd failed: ".($?>>8)); }
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted:237:#print `java -classpath '.' pp2.datahandler.GenerateCAFAOutput -m 1 -i $outfile_path.raw.leaves -o $outfile_path.predicted_allnodes -c $scorecolumn -pr $precision -rc $recall -gc $closure -gn $goterms`;
metastudent-2.0.1/metastudentPkg/lib/groupB/run/knn_weighted-238-
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-4681-4681	Ran GTPase binding	molecular_function	GO:0008536	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:4682:4682	cytoplasm	cellular_component	GO:0005737	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-4683-4683	importin	cellular_component	GO:0005646	1	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-4689-4689	nuclear lamina	cellular_component	GO:0005652	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:4690:4690	nucleoplasm	cellular_component	GO:0005654	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-4691-4691	nucleolar ribonuclease P complex	cellular_component	GO:0005655	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-5961-5961	negative regulation of axonemal microtubule depolymerization	biological_process	GO:0007027	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:5962:5962	cytoplasm organization	biological_process	GO:0007028	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-5963-5963	endoplasmic reticulum organization	biological_process	GO:0007029	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-6225-6225	oocyte anterior/posterior axis specification	biological_process	GO:0007314	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:6226:6226	pole plasm assembly	biological_process	GO:0007315	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:6227:6227	pole plasm RNA localization	biological_process	GO:0007316	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:6228:6228	regulation of pole plasm oskar mRNA localization	biological_process	GO:0007317	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:6229:6229	pole plasm protein localization	biological_process	GO:0007318	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-6230-6230	negative regulation of oskar mRNA translation	biological_process	GO:0007319	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-11006-11006	brain-specific angiogenesis inhibitor activity	molecular_function	GO:0016527	1	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:11007:11007	sarcoplasm	cellular_component	GO:0016528	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-11008-11008	sarcoplasmic reticulum	cellular_component	GO:0016529	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-12602-12602	mitochondrial RNA localization	biological_process	GO:0019093	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:12603:12603	pole plasm mRNA localization	biological_process	GO:0019094	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:12604:12604	pole plasm mitochondrial rRNA localization	biological_process	GO:0019095	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:12605:12605	pole plasm mitochondrial lrRNA localization	biological_process	GO:0019096	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:12606:12606	pole plasm mitochondrial srRNA localization	biological_process	GO:0019097	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-12607-12607	reproductive behavior	biological_process	GO:0019098	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-14556-14556	kynureninase activity	molecular_function	GO:0030429	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:14557:14557	host cell cytoplasm	cellular_component	GO:0030430	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-14558-14558	sleep	biological_process	GO:0030431	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-16078-16078	cortical protein anchoring	biological_process	GO:0032065	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:16079:16079	nucleolus to nucleoplasm transport	biological_process	GO:0032066	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-16080-16080	Type IV site-specific deoxyribonuclease activity	molecular_function	GO:0032067	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-16834-16834	distributive segregation	biological_process	GO:0032837	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:16835:16835	cell projection cytoplasm	cellular_component	GO:0032838	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:16836:16836	dendrite cytoplasm	cellular_component	GO:0032839	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-16837-16837	intramolecular proline-rich ligand binding	molecular_function	GO:0032840	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-17647-17647	host cell chloroplast thylakoid membrane	cellular_component	GO:0033654	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:17648:17648	host cell cytoplasm part	cellular_component	GO:0033655	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-17649-17649	modification by symbiont of host chloroplast	biological_process	GO:0033656	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-20189-20189	taxoid 7beta-hydroxylase activity	molecular_function	GO:0036239	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:20190:20190	septal periplasm	cellular_component	GO:0036240	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-20191-20191	glutamate catabolic process to 4-hydroxybutyrate	biological_process	GO:0036241	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-20828-20828	nuclear viral factory	cellular_component	GO:0039715	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:20829:20829	viroplasm viral factory	cellular_component	GO:0039716	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-20830-20830	spherule viral factory	cellular_component	GO:0039717	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-22021-22021	extracellular non-membrane-bounded organelle	cellular_component	GO:0043264	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:22022:22022	ectoplasm	cellular_component	GO:0043265	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-22023-22023	regulation of potassium ion transport	biological_process	GO:0043266	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-22761-22761	interaction with host via substance released by membrane budding	biological_process	GO:0044052	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:22762:22762	translocation of peptides or proteins into host cell cytoplasm	biological_process	GO:0044053	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-22763-22763	rounding by symbiont of host cells	biological_process	GO:0044054	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-22802-22802	host cell nuclear part	cellular_component	GO:0044094	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:22803:22803	host cell nucleoplasm	cellular_component	GO:0044095	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-22804-22804	type IV pilus	cellular_component	GO:0044096	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-22807-22807	polar tube	cellular_component	GO:0044099	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:22808:22808	sporoplasm	cellular_component	GO:0044100	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-22809-22809	(R)-citramalyl-CoA lyase activity	molecular_function	GO:0044101	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-22919-22919	host cell plasmodesma	cellular_component	GO:0044219	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:22920:22920	host cell perinuclear region of cytoplasm	cellular_component	GO:0044220	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-22921-22921	host cell synapse	cellular_component	GO:0044221	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-23138-23138	microtubule organizing center part	cellular_component	GO:0044450	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:23139:23139	nucleoplasm part	cellular_component	GO:0044451	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-23140-23140	nucleolar part	cellular_component	GO:0044452	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-23917-23917	bicoid mRNA localization	biological_process	GO:0045450	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:23918:23918	pole plasm oskar mRNA localization	biological_process	GO:0045451	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-23919-23919	bone resorption	biological_process	GO:0045453	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-23961-23961	photoreceptor cell maintenance	biological_process	GO:0045494	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:23962:23962	pole plasm	cellular_component	GO:0045495	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-23963-23963	male analia development	biological_process	GO:0045496	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-24299-24299	positive regulation of bicoid mRNA localization	biological_process	GO:0045854	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:24300:24300	negative regulation of pole plasm oskar mRNA localization	biological_process	GO:0045855	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:24301:24301	positive regulation of pole plasm oskar mRNA localization	biological_process	GO:0045856	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-24302-24302	negative regulation of molecular function, epigenetic	biological_process	GO:0045857	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-25019-25019	mandelonitrile lyase activity	molecular_function	GO:0046593	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:25020:25020	maintenance of pole plasm mRNA location	biological_process	GO:0046594	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:25021:25021	establishment of pole plasm mRNA localization	biological_process	GO:0046595	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-25022-25022	regulation of viral entry into host cell	biological_process	GO:0046596	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-26698-26698	cell maturation	biological_process	GO:0048469	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:26699:26699	perinuclear region of cytoplasm	cellular_component	GO:0048471	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-26700-26700	threonine-phosphate decarboxylase activity	molecular_function	GO:0048472	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-30325-30325	long term synaptic depression	biological_process	GO:0060292	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:30326:30326	germ plasm	cellular_component	GO:0060293	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-30327-30327	cilium movement involved in cell motility	biological_process	GO:0060294	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-33893-33893	chaperone-mediated protein transport across periplasmic space	biological_process	GO:0072323	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:33894:33894	ascus epiplasm	cellular_component	GO:0072324	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-33895-33895	vulval cell fate commitment	biological_process	GO:0072325	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-34655-34655	entry of viral genome into host nucleus via docking of viral capsid to the nuclear pore complex and injection of viral genome	biological_process	GO:0075507	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:34656:34656	entry of viral genome into host nucleus via retainment of capsid in nuclear pore complex and release of genome into nucleoplasm	biological_process	GO:0075508	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-34657-34657	endocytosis involved in viral entry into host cell	biological_process	GO:0075509	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-35575-35575	phagocytic vesicle lumen	cellular_component	GO:0097013	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:35576:35576	ciliary cytoplasm	cellular_component	GO:0097014	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:35577:35577	bacterial-type flagellar cytoplasm	cellular_component	GO:0097015	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-35578-35578	L27 domain binding	molecular_function	GO:0097016	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-36185-36185	maintenance of protein complex location	biological_process	GO:0098544	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:36186:36186	maintenance of protein complex location in cytoplasm	biological_process	GO:0098545	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-36187-36187	2',5-3',5'-cyclic GMP-AMP binding	molecular_function	GO:0098546	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-38540-38540	DNA ligation involved in nuclear cell cycle DNA replication	biological_process	GO:1902333	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:38541:38541	fructose export from vacuole to cytoplasm	biological_process	GO:1902334	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-38542-38542	positive chemotaxis involved in neuron migration	biological_process	GO:1902335	1	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-39033-39033	G-protein coupled receptor catabolic process	biological_process	GO:1990172	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt:39034:39034	protein localization to nucleoplasm	biological_process	GO:1990173	0	0	0
metastudent-2.0.1/metastudentPkg/lib/groupB/data/goterm2014.txt-39035-39035	phosphodiesterase decapping endonuclease activity	molecular_function	GO:1990174	0	0	0
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper2.pl-20-my @cmd = qq|exercise3.pl $targets $filename -e0.1 -h0.1 -j2 $database|;
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper2.pl:21:system(@cmd) && confess("@cmd failed: ".($?>>8));
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper2.pl-22-
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupC/validate.pl-76-my @cmd = qq|/mnt/opt/data/pp2_exercise/groups/groupC/CafaWrapper3.pl $train $outfile $outfolder|;
metastudent-2.0.1/metastudentPkg/lib/groupC/validate.pl:77:system(@cmd) && confess("@cmd failed: ".($?>>8));
metastudent-2.0.1/metastudentPkg/lib/groupC/validate.pl-78-#unlink($outfile);
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper3_new.pl-11-my @cmd = qq|exercise3.pl $database $tmpDir/blast.out|;
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper3_new.pl:12:system(@cmd) && confess("@cmd failed: ".($?>>8));
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper3_new.pl-13-
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper1.pl-20-my @cmd = qq|exercise3.pl $targets $filename -e0.1 -h0.1 -j2 $database|;
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper1.pl:21:system(@cmd) && confess("@cmd failed: ".($?>>8));
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper1.pl-22-
##############################################
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper3.pl-11-my @cmd = qq|./exercise3.pl $database $tmpDir/blast.out|;
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper3.pl:12:system(@cmd) && confess("@cmd failed: ".($?>>8));
metastudent-2.0.1/metastudentPkg/lib/groupC/CafaWrapper3.pl-13-
##############################################
metastudent-2.0.1/debian/tests/run-unit-test-18-for lnk in `find . -type l -name "*.gz"` ; do
metastudent-2.0.1/debian/tests/run-unit-test:19:    ln -s `basename $(readlink $lnk) .gz` `echo $lnk | sed 's/\.gz$//'`
metastudent-2.0.1/debian/tests/run-unit-test-20-    rm $lnk