Added the corresponding \ characters when doing cut

bu_isciii/templates/mtbseq/ANALYSIS/ANALYSIS01_MTBSEQ/03-MTBSeq/lablog

@@ -13,9 +13,9 @@ cat ../samples_id.txt | xargs -I @@ echo -e "srun --job-name MTBSEQ.@@  --output
 
 # classification
 echo "mkdir classification_all" > _03_gather_results.sh 
-echo "FIRST_SAMPLE=$(head -n1 ../samples_id.txt); head -n 1 ${FIRST_SAMPLE}/Classification/Strain_Classification.tab > classification_all/strain_classification_all.tab; grep \"^'$analysis_year\" */Classification/Strain_Classification.tab | cut -d ":" -f 2 >> classification_all/strain_classification_all.tab" >> _03_gather_results.sh
+echo "FIRST_SAMPLE=$(head -n1 ../samples_id.txt); head -n 1 ${FIRST_SAMPLE}/Classification/Strain_Classification.tab > classification_all/strain_classification_all.tab; grep \"^'$analysis_year\" */Classification/Strain_Classification.tab | cut -d \":\" -f 2 >> classification_all/strain_classification_all.tab" >> _03_gather_results.sh
 # resistances
 echo "mkdir resistances_all" >> _03_gather_results.sh
 cat ../samples_id.txt | xargs -I % echo "cp %/Amend/NONE_joint_cf4_cr4_fr75_ph4_samples1_amended.tab resistances_all/%_var_res.tab" >> _03_gather_results.sh
 # stats
-echo "mkdir stats_all; FIRST_SAMPLE=$(head -n1 ../samples_id.txt); head -n 1 ${FIRST_SAMPLE}/Statistics/Mapping_and_Variant_Statistics.tab > stats_all/statistics_all.tab; grep \"^'$analysis_year\" */Statistics/Mapping_and_Variant_Statistics.tab | cut -d ":" -f 2 >> stats_all/statistics_all.tab" >> _03_gather_results.sh
+echo "mkdir stats_all; FIRST_SAMPLE=$(head -n1 ../samples_id.txt); head -n 1 ${FIRST_SAMPLE}/Statistics/Mapping_and_Variant_Statistics.tab > stats_all/statistics_all.tab; grep \"^'$analysis_year\" */Statistics/Mapping_and_Variant_Statistics.tab | cut -d \":\" -f 2 >> stats_all/statistics_all.tab" >> _03_gather_results.sh