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Subject: update example command to match debian binary
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Description: in Debian, binary does not contain version name,
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use base name and exec in PATH
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Author: Olivier Sallou <osallou@debian.org>
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Last-Updated: 2017-01-14
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Forwarded: no
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--- a/Example/Example-without-alignment-cutting/run-command
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+++ b/Example/Example-without-alignment-cutting/run-command
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@@ -1 +1 @@
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-../../BaitFisher-v1.2.7 parameter.txt 1> console_output 2> console_error_output
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+BaitFisher parameter.txt 1> console_output 2> console_error_output
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--- a/Example/Example-without-alignment-cutting/BaitFilter-analysis/run-BaitFilter
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+++ b/Example/Example-without-alignment-cutting/BaitFilter-analysis/run-BaitFilter
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@@ -1,6 +1,6 @@
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-../../../BaitFilter-v1.0.5 -m ab -i ../BaitFisher-results/loci_baits.txt -o baits_filtered_best-in-alignment_minNumBaits.txt 1> console_o_filter_bestBaits 2> console_e_filter_bestBaits
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-../../../BaitFilter-v1.0.5 -m as -i ../BaitFisher-results/loci_baits.txt -o baits_filtered_best-in-alignment_maxNumSeq.txt 1> console_o_filter_bestSeqs 2> console_e_filter_bestSeqs
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+BaitFilter -m ab -i ../BaitFisher-results/loci_baits.txt -o baits_filtered_best-in-alignment_minNumBaits.txt 1> console_o_filter_bestBaits 2> console_e_filter_bestBaits
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+BaitFilter -m as -i ../BaitFisher-results/loci_baits.txt -o baits_filtered_best-in-alignment_maxNumSeq.txt 1> console_o_filter_bestSeqs 2> console_e_filter_bestSeqs
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## Produce bait file that can be uploaded at a bait producing company. So war all companies accepted the file produced with the following command.
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-../../../BaitFilter-v1.0.5 -c Agilent-Germany -i baits_filtered_best-in-alignment_maxNumSeq.txt -o Final_baits_filtered_best-in-alignment_maxNumSeq.txt --ID-prefix My-project-name- 1> conversion_maxNumSeq.o 2> conversion_maxNumSeq.e
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-../../../BaitFilter-v1.0.5 -c Agilent-Germany -i baits_filtered_best-in-alignment_minNumBaits.txt -o Final_baits_filtered_best-in-alignment_minNumBaits.txt --ID-prefix My-project-name- 1> conversion_minNumBaits.o 2> conversion_minNumBaits.e
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\ No newline at end of file
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+BaitFilter -c Agilent-Germany -i baits_filtered_best-in-alignment_maxNumSeq.txt -o Final_baits_filtered_best-in-alignment_maxNumSeq.txt --ID-prefix My-project-name- 1> conversion_maxNumSeq.o 2> conversion_maxNumSeq.e
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+BaitFilter -c Agilent-Germany -i baits_filtered_best-in-alignment_minNumBaits.txt -o Final_baits_filtered_best-in-alignment_minNumBaits.txt --ID-prefix My-project-name- 1> conversion_minNumBaits.o 2> conversion_minNumBaits.e
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