

rsync -ruptl /var/www/html/rsat/perl-scripts/lib/js /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1


rsync -ruptl /var/www/html/rsat/public_html/images/program_icons/matrix-clustering_icons /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_second_matrices. -from transfac -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/2_input_motifs_processed_1.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/2_input_motifs_processed_1.tf -from tf -to transfac -prefix_id 2 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/2_input_motifs_processed.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_query_matrices.transfac -from transfac -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/1_input_motifs_processed_1.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/1_input_motifs_processed_1.tf -from tf -to transfac -prefix_id 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/1_input_motifs_processed.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_third_matrices.transfac -from transfac -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/3_input_motifs_processed_1.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/3_input_motifs_processed_1.tf -from tf -to transfac -prefix_id 3 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/3_input_motifs_processed.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/2_input_motifs_processed.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/1_input_motifs_processed.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/3_input_motifs_processed.tf  > /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -split -from tf -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/motif


 cat /var/www/html/rsat/R-scripts/matrix-clustering.R | /usr/bin/R --slave --no-save --no-restore --no-environ --args " infile = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/pairwise_compa.tab'; hclust.method = 'average'; description.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab'; distance.table = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/distance_table.tab'; alignment.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/alignment_table.tab'; verbosity = 0; metric = 'Ncor'; heatmap.color.palette = 'YlOrRd'; heatmap.color.classes = '9'; export.newick = 0; radial.only = 0; draw.heatmap = 1; draw.consensus = 0; pos.hclust.in.heatmap = 'column'; lthsp = 'Ncor_0.4_cor_0.6_'; out.prefix = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering'; "


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_2_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_2_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_1_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_1_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_4_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_4_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_3_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_3_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_5_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_5_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_6_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_6_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_7_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_7_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_8_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_8_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_9_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_9_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_10_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_10_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_11_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_11_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_12_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_12_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_13_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_13_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_14_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_14_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_15_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_15_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_16_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_16_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_17_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_17_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_18_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_18_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_19_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_19_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_20_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_20_transfac_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/cluster_21_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_data/cluster_21_transfac_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m7_assembly_7_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m2_assembly_2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m12_assembly_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m3_assembly_3_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m19_assembly_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m6_assembly_6_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m15_assembly_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m16_assembly_16_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_10/merged_consensuses/node_1/cluster_10_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m18_assembly_18_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m8_assembly_8_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_11/merged_consensuses/node_1/cluster_11_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_10/merged_consensuses/node_1/cluster_10_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_10 -name cluster_10 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_10/merged_consensuses/node_1/cluster_10_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_11/merged_consensuses/node_1/cluster_11_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_11 -name cluster_11 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_11/merged_consensuses/node_1/cluster_11_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165949_Zwm5KX


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_10/merged_consensuses/node_1/cluster_10_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165949_axbpIa


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165949_BLMf2q


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165949_Mg5BgO


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_11/merged_consensuses/node_1/cluster_11_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165949_HpylYv


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_10/merged_consensuses/node_1/cluster_10_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_11/merged_consensuses/node_1/cluster_11_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m1_assembly_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m8_assembly_8_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_4/cluster_1_node_4_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m2_assembly_2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_5/cluster_1_node_5_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m15_assembly_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m1_assembly_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m8_assembly_8_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_6/cluster_1_node_6_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_5/cluster_1_node_5_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_5/cluster_1_node_5_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_4/cluster_1_node_4_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_4/cluster_1_node_4_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_6/cluster_1_node_6_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_6/cluster_1_node_6_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_4/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165950_UPMFaR


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_6/cluster_1_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165950_NqfPoS


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_5/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165950_PI1z8M


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_4/cluster_1_node_4_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_5/cluster_1_node_5_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_6/cluster_1_node_6_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m16_assembly_16_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m20_assembly_20_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m9_assembly_9_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_1/cluster_12_node_1_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices_temp.tf -from tf -to tf  -attr name cluster_13 -attr accession cluster_13 -set_attr merged_AC '1:::assembly_16' -set_attr merged_ID 'assembly_16' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m19_assembly_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m2_assembly_2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_7/cluster_1_node_7_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m15_assembly_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m1_assembly_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m8_assembly_8_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_8/cluster_1_node_8_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_1/cluster_12_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_12 -name cluster_12 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_1/cluster_12_node_1_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m19_assembly_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m2_assembly_2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_9/cluster_1_node_9_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_7/cluster_1_node_7_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_7/cluster_1_node_7_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_8/cluster_1_node_8_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_8/cluster_1_node_8_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_9/cluster_1_node_9_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_9/cluster_1_node_9_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_1/cluster_12_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165951_BhUL5P


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_7/cluster_1_nb_motifs_4.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165951_pVyJ6l


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_8/cluster_1_nb_motifs_4.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165951_Y63rAy


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_9/cluster_1_nb_motifs_5.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165951_HPkPnz


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_1/cluster_12_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_8/cluster_1_node_8_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_7/cluster_1_node_7_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_9/cluster_1_node_9_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m17_assembly_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m5_assembly_5_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_10/cluster_1_node_10_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m14_assembly_14_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m20_assembly_20_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m9_assembly_9_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_2/cluster_12_node_2_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices_temp.tf -from tf -to tf  -attr name cluster_14 -attr accession cluster_14 -set_attr merged_AC '1:::assembly_17' -set_attr merged_ID 'assembly_17' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m9_assembly_9_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m19_assembly_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m2_assembly_2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_11/cluster_1_node_11_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_2/cluster_12_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_12 -name cluster_12 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_2/cluster_12_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_10/cluster_1_node_10_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_10/cluster_1_node_10_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_11/cluster_1_node_11_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_11/cluster_1_node_11_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_2/cluster_12_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165952_ZSb6UR


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_10/cluster_1_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165952_1xdLaU


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_11/cluster_1_nb_motifs_6.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165952_IgHLgP


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_10/cluster_1_node_10_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_12/merged_consensuses/node_2/cluster_12_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_11/cluster_1_node_11_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m8_assembly_8_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices_temp.tf -from tf -to tf  -attr name cluster_15 -attr accession cluster_15 -set_attr merged_AC '1:::assembly_8' -set_attr merged_ID 'assembly_8' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m15_assembly_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m1_assembly_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m8_assembly_8_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m5_assembly_5_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_12/cluster_1_node_12_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_12/cluster_1_node_12_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_12/cluster_1_node_12_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m9_assembly_9_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m19_assembly_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m2_assembly_2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m15_assembly_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m1_assembly_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m8_assembly_8_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m5_assembly_5_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_13/cluster_1_node_13_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_13/cluster_1_node_13_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_13/cluster_1_node_13_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_13/cluster_1_nb_motifs_12.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165953_NvOdwW


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_12/cluster_1_nb_motifs_6.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165953_mCOddR


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_13/cluster_1_node_13_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_12/cluster_1_node_12_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m19_assembly_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m18_assembly_18_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices_temp.tf -from tf -to tf  -attr name cluster_16 -attr accession cluster_16 -set_attr merged_AC '1:::assembly_19' -set_attr merged_ID 'assembly_19' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices_temp.tf -from tf -to tf  -attr name cluster_17 -attr accession cluster_17 -set_attr merged_AC '2:::assembly_18' -set_attr merged_ID 'assembly_18' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m12_assembly_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m7_assembly_7_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m2_assembly_2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_14/cluster_1_node_14_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_14/cluster_1_node_14_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_14/cluster_1_node_14_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_14/cluster_1_nb_motifs_4.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165954_YSiSff


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_14/cluster_1_node_14_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m7_assembly_7_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_18/cluster_18_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m11_assembly_11_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_19/cluster_19_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_18/cluster_18_matrices_temp.tf -from tf -to tf  -attr name cluster_18 -attr accession cluster_18 -set_attr merged_AC '3:::assembly_7' -set_attr merged_ID 'assembly_7' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_18/cluster_18_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_19/cluster_19_matrices_temp.tf -from tf -to tf  -attr name cluster_19 -attr accession cluster_19 -set_attr merged_AC '1:::assembly_11' -set_attr merged_ID 'assembly_11' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_19/cluster_19_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m2_assembly_2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m9_assembly_9_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m19_assembly_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m2_assembly_2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m15_assembly_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m1_assembly_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m8_assembly_8_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m5_assembly_5_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_15/cluster_1_node_15_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m12_assembly_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m7_assembly_7_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m2_assembly_2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m2_assembly_2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m9_assembly_9_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m19_assembly_19_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m4_assembly_4_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m2_assembly_2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m15_assembly_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m1_assembly_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m8_assembly_8_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m3_assembly_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m5_assembly_5_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_16/cluster_1_node_16_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_15/cluster_1_node_15_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_15/cluster_1_node_15_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_16/cluster_1_node_16_cat.tf -v 0 -in_format tf -out_format tf -id cluster_1 -name cluster_1 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_16/cluster_1_node_16_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_19/cluster_19_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_18/cluster_18_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_15/cluster_1_nb_motifs_13.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165955_Udq0Az


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_16/cluster_1_nb_motifs_17.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165955_z6LgWX


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_15/cluster_1_node_15_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_16/cluster_1_node_16_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m20_assembly_20_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m13_assembly_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m7_assembly_7_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m12_assembly_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m4_assembly_4_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_3/cluster_2_node_3_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m13_assembly_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m7_assembly_7_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices_temp.tf -from tf -to tf  -attr name cluster_20 -attr accession cluster_20 -set_attr merged_AC '2:::assembly_20' -set_attr merged_ID 'assembly_20' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_3/cluster_2_node_3_cat.tf -v 0 -in_format tf -out_format tf -id cluster_2 -name cluster_2 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_3/cluster_2_node_3_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_2 -name cluster_2 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_2 -name cluster_2 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165956_VCpL8O


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_3/cluster_2_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165956_CT5hSS


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165956_LtLtg5


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_3/cluster_2_node_3_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m13_assembly_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m13_assembly_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m7_assembly_7_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m12_assembly_12_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m4_assembly_4_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_4/cluster_2_node_4_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices_temp.tf -from tf -to tf  -attr name cluster_21 -attr accession cluster_21 -set_attr merged_AC '2:::assembly_13' -set_attr merged_ID 'assembly_13' -set_attr type merge -set_attr merge_type sum -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_4/cluster_2_node_4_cat.tf -v 0 -in_format tf -out_format tf -id cluster_2 -name cluster_2 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_4/cluster_2_node_4_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_4/cluster_2_nb_motifs_5.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165957_wYqX0X


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_4/cluster_2_node_4_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m1_assembly_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m1_assembly_1_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m5_assembly_5_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m11_assembly_11_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_4 -name cluster_4 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_3 -name cluster_3 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165958_ai1Ee9


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165958_u1uzKa


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m14_assembly_14_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m11_assembly_11_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m10_assembly_10_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m1_assembly_1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m1_assembly_1_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_2/cluster_4_node_2_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_2/cluster_4_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_4 -name cluster_4 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_2/cluster_4_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_5 -name cluster_5 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_2/cluster_4_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165959_uzDfOw


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.165959_unSTlU


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_2/cluster_4_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m17_assembly_17_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m12_assembly_12_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_6 -name cluster_6 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.170000_c6vX40


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m13_assembly_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m5_assembly_5_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m16_assembly_16_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m10_assembly_10_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m16_assembly_16_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_2/cluster_8_node_2_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m9_assembly_9_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m10_assembly_10_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/1_m6_assembly_6_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m16_assembly_16_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_3/cluster_8_node_3_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_7 -name cluster_7 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_8 -name cluster_8 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_2/cluster_8_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_8 -name cluster_8 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_2/cluster_8_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_3/cluster_8_node_3_cat.tf -v 0 -in_format tf -out_format tf -id cluster_8 -name cluster_8 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_3/cluster_8_node_3_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.170001_49MMiB


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.170001_3T08UI


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_2/cluster_8_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.170001_cUgsl1


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_3/cluster_8_nb_motifs_4.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.170002_ELIyJf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_2/cluster_8_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_3/cluster_8_node_3_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m15_assembly_15_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m14_assembly_14_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_9/merged_consensuses/node_1/cluster_9_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/2_m10_assembly_10_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m13_assembly_13_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/3_m5_assembly_5_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_2/cluster_7_node_2_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_9/merged_consensuses/node_1/cluster_9_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_9 -name cluster_9 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_9/merged_consensuses/node_1/cluster_9_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_2/cluster_7_node_2_cat.tf -v 0 -in_format tf -out_format tf -id cluster_7 -name cluster_7 -calc sum -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_2/cluster_7_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_2/cluster_7_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.170002_jm093z


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_9/merged_consensuses/node_1/cluster_9_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/IC_test_2025-09-15.170002_FySDse


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_2/cluster_7_node_2_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_clusters_information/cluster_9/merged_consensuses/node_1/cluster_9_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


rm -r /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_pairwise_compa_logos


cp /var/www/html/rsat/public_html/templates_html/display_d3_tree.html /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_logo_tree.html


cp /var/www/html/rsat/public_html/templates_html/display_small_d3_tree.html /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_portable_logo_tree.html


mv /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_temporary.html /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_logo_tree.html


mv /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_portable_logo_tree.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_html/pairwise_compa_matrix_descriptions.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/distance_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/distance_table.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/alignment_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/alignment_table.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/clusters.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/clusters.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/clusters_motif_names.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/clusters_motif_names.html


mv -f /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_portable_logo_tree.html


 cat /var/www/html/rsat/R-scripts/heatmap_clusters_by_collection.R | /usr/bin/R --slave --no-save --no-restore --no-environ --args " cluster.counts.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/clusters_summary_table.tab'; heatmap.table.d3 = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/collection_heatmap_tab.tsv'; attributes.list.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/collection_heatmap_order.tab'; percent.table.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/clusters_summary_percent_table.tab'; coverage.table.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/clusters_summary_coverage_contingency_table.tab'; motif.richness.table = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_motif_richness.tsv'; coverage.table.d3 = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/convergency_heatmap_tab.tsv'; coverage.heatmap.attributes.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_tables/convergency_heatmap_attributes.tab'; coverage.json.folder = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_coverage_json'; heatmap.color.palette = 'YlOrRd'; heatmap.color.classes = '9'; root.motifs.table = '/var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_root_motifs_table.tab'; "


cp /var/www/html/rsat/public_html/templates_html/dynamic_heatmap_d3.html /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_dynamic_heatmap.html


mv /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_temporary.html /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_dynamic_heatmap.html


cp /var/www/html/rsat/public_html/templates_html/dynamic_heatmap_d3_and_tables_motif_collection_coverage.html /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_dynamic_coverage_heatmap.html


mv /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_temporary.html /var/www/html/rsat/public_html/tmp/www-data/2025/09/15/matrix-clustering_2025-09-15.165934_I5ihg1/matrix-clustering_dynamic_coverage_heatmap.html
