Working on Windows 8 x64 system and continue to run into multiple errors. Copy of command prompt commands and errors listed bellow. Any help would be greatly appreciated.

C:\Desktop\MSP Project Working Folder\MSP-forward>perl tagcl eaner.pl -minlen 100 -nomatch 3 -verbose -64 -trim_within 100 -log -fastq msp898 3_F09R08.fastq -out tagcleaner_out/msp8983_F09R08_4M2_SWS6.15F -tag5 ACGCTCGACAA AAGCACATTTAATTCATTATCC -tag3 ATGAGTTTCTGGGGTGCTACTACAGTGCT

Can't find string terminator "'" anywhere before EOF at -e line 1.

ERROR: input file for -fastq is in UNKNOWN format not in FASTQ format. Try 'perl tagcleaner.pl -h' for more information. Exit program.

ERROR: Can't open file : No such file or directory

C:\Desktop\MSP Project Working Folder\MSP-forward>perl -e ta gcleaner.pl -minlen 100 -nomatch 3 -verbose -64 -trim_within 100 -log -fastq msp 8983_F09R08.fastq -out tagcleaner_out/msp8983_F09R08_4M2_SWS6.15F -tag5 ACGCTCGA CAAAAGCACATTTAATTCATTATCC -tag3 ATGAGTTTCTGGGGTGCTACTACAGTGCT

Can't locate inlen.pm in @INC (@INC contains:

C:/Strawberry/perl/site/lib C:/Str awberry/perl/vendor/lib C:/Strawberry/perl/lib .). BEGIN failed--compilation aborted.

C:\Desktop\MSP Project Working Folder\MSP-forward>perl -e "t agcleaner.pl -minlen 100 -nomatch 3 -verbose -64 -trim_within 100 -log -fastq ms p8983_F09R08.fastq -out tagcleaner_out/msp8983_F09R08_4M2_SWS6.15F -tag5 ACGCTCG ACAAAAGCACATTTAATTCATTATCC -tag3 ATGAGTTTCTGGGGTGCTACTACAGTGCT"

Number found where operator expected at -e line 1, near "minlen 100" (Do you need to predeclare minlen?)

Number found where operator expected at -e line 1, near "nomatch 3" (Do you need to predeclare nomatch?)

Number found where operator expected at -e line 1, near "trim_within 100" (Do you need to predeclare trim_within?)

syntax error at -e line 1, near "minlen 100"

Search pattern not terminated at -e line 1.

In reply to -e line 1 by Ignoramus1

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