diff options
| -rwxr-xr-x | SelectiveGenomeAmplification | 13 |
1 files changed, 5 insertions, 8 deletions
diff --git a/SelectiveGenomeAmplification b/SelectiveGenomeAmplification index 4e14ecb..075d7c7 100755 --- a/SelectiveGenomeAmplification +++ b/SelectiveGenomeAmplification @@ -107,7 +107,7 @@ bg_counts=$counts_directory/$(basename $background)-counts fg_tmp=$tmp_directory/$(basename $foreground) bg_tmp=$tmp_directory/$(basename $background) -selected=$tmp_directory/$(basename $foreground)$(basename $background)-selected +selected=$tmp_directory/$(basename $foreground)_$(basename $background)-selected-mers # remove ignored mers if [ "$ignore_mers" ]; then @@ -127,11 +127,8 @@ echo "checking if mers are below melting temperature in the background" rm $bg_counts-non-melting melting_range $min_melting_temp $max_melting_temp < $bg_counts > $bg_counts-non-melting -#echo "scoring mer selectivity" -# python ./mer_selectivity.py $fg_counts-non-melting $bg_counts-non-melting -mer_selectivity.py $fg_counts-non-melting $fg_tmp $bg_counts-non-melting $bg_tmp > $selected +echo "scoring mer selectivity" +select_mers.py $fg_counts-non-melting $fg_tmp $bg_counts-non-melting $bg_tmp > $selected - -# echo "scoring top 100 mers based on selectivity" -# select_mers.py $selected $output_directory/output_`date +%s` -select_mers.py $selected $fg_tmp $bg_tmp $output_directory/output_`date +%s` +echo "scoring top mers based on selectivity" +score_mers.py $selected $fg_tmp $bg_tmp $output_directory/output_`date +%s` |