Remove shell scripts

IMP_commands/run_IMP_A02-MEGAHIT.sh

-#!/bin/bash -l
-
-## Run IMP with MEGAHIT assembler on the wastewater (WW) sludge dataset
-
-date
-
-python3.4 IMP \
-  -m /mnt/md1200/snarayanasamy/IMP_data/A02/Lux_Lipids_Community-250111_DNA_TACTTCGG_L007_R1_001.fastq \
-  -m /mnt/md1200/snarayanasamy/IMP_data/A02/Lux_Lipids_Community-250111_DNA_TACTTCGG_L007_R2_001.fastq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/A02/Lux-Lipids-Community-RNAlater-50ng_CGATGT_L006_R1_001.fastq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/A02/Lux-Lipids-Community-RNAlater-50ng_CGATGT_L006_R2_001.fastq \
-  -o /home/snarayanasamy/Work/IMP_analysis/A02_20151202-megahit \
-  -c conf/bigbug_config_noHGfilter.imp.json \
-  -a megahit
-
-date

IMP_commands/run_IMP_A02.sh

-#!/bin/bash -l
-
-## Run IMP on default mode, using IDBA-UD on the wastewater (WW) sludge dataset
-
-date
-
-python3.4 IMP \
-  -m /mnt/md1200/snarayanasamy/IMP_data/A02/Lux_Lipids_Community-250111_DNA_TACTTCGG_L007_R1_001.fastq \
-  -m /mnt/md1200/snarayanasamy/IMP_data/A02/Lux_Lipids_Community-250111_DNA_TACTTCGG_L007_R2_001.fastq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/A02/Lux-Lipids-Community-RNAlater-50ng_CGATGT_L006_R1_001.fastq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/A02/Lux-Lipids-Community-RNAlater-50ng_CGATGT_L006_R2_001.fastq \
-  -o  /home/snarayanasamy/Work/IMP_analysis/A02_20151130-idba \
-  -c conf/bigbug_config_noHGfilter.imp.json
-
-date

IMP_commands/run_IMP_X310763260-MEGAHIT.sh

-#!/bin/bash -l
-
-## Run IMP with MEGAHIT assembler on the human fecal (HF) dataset
-
-date
-
-python3.4 IMP \
-  -m /mnt/md1200/snarayanasamy/IMP_data/Huttenhower/X310763260/X310763260_MG_R1.fq \
-  -m /mnt/md1200/snarayanasamy/IMP_data/Huttenhower/X310763260/X310763260_MG_R2.fq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/Huttenhower/X310763260/X310763260_MT_R1.fq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/Huttenhower/X310763260/X310763260_MT_R2.fq \
-  -o /home/snarayanasamy/Work/IMP_analysis/X310763260_20151006-megahit \
-  -c conf/bigbug_config.imp.json \
-  -a megahit
-
-date

IMP_commands/run_IMP_X310763260.sh

-#!/bin/bash -l
-
-## Run IMP on default mode, using IDBA-UD on the human fecal (HF) dataset
-
-date
-
-python3.4 IMP \
-  -m /mnt/md1200/snarayanasamy/IMP_data/Huttenhower/X310763260/X310763260_MG_R1.fq \
-  -m /mnt/md1200/snarayanasamy/IMP_data/Huttenhower/X310763260/X310763260_MG_R2.fq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/Huttenhower/X310763260/X310763260_MT_R1.fq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/Huttenhower/X310763260/X310763260_MT_R2.fq \
-  -o /home/snarayanasamy/Work/IMP_analysis/X310763260_20151005-idba \
-  -c conf/bigbug_config.imp.json
-
-date

IMP_commands/run_IMP_simDat-MEGAHIT.sh

-#!/bin/bash -l
-
-## Run IMP with MEGAHIT assembler on the simulated mock (SM) dataset
-
-date
-
-python3.4 IMP \
-  -m /mnt/md1200/snarayanasamy/IMP_data/simulated_data/MG/73_species_MG_R1_fixed.fq \
-  -m /mnt/md1200/snarayanasamy/IMP_data/simulated_data/MG/73_species_MG_R2_fixed.fq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/simulated_data/MT/73_species_all_R1.fastq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/simulated_data/MT/73_species_all_R2.fastq \
-  -o /home/snarayanasamy/Work/IMP_analysis/simulated_data_output_20151002-megahit \
-  -c conf/bigbug_config.imp.json \
-  -a megahit
-
-date

IMP_commands/run_IMP_simDat.sh

-#!/bin/bash -l
-
-## Run IMP on default mode, using IDBA-UD on the simulated mock (SM) dataset
-
-date
-
-python3.4 IMP \
-  -m /mnt/md1200/snarayanasamy/IMP_data/simulated_data/MG/73_species_MG_R1_fixed.fq \
-  -m /mnt/md1200/snarayanasamy/IMP_data/simulated_data/MG/73_species_MG_R2_fixed.fq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/simulated_data/MT/73_species_all_R1.fastq \
-  -t /mnt/md1200/snarayanasamy/IMP_data/simulated_data/MT/73_species_all_R2.fastq \
-  -o /home/snarayanasamy/Work/IMP_analysis/simulated_data_output_20151002-idba \
-  -c conf/bigbug_config.imp.json \
-  -a idba
-
-date