

rsync -ruptl /var/www/html/rsat/perl-scripts/lib/js /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF


rsync -ruptl /var/www/html/rsat/public_html/images/program_icons/matrix-clustering_icons /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_query_matrices.meme -from meme -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/Collection_1_input_motifs_processed_1.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/Collection_1_input_motifs_processed_1.tf -from tf -to transfac -prefix_id Collection_1 -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/Collection_1_input_motifs_processed.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/Collection_1_input_motifs_processed.tf  > /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -split -from tf -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/pairwise_compa.tab'; hclust.method = 'average'; description.file = '/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab'; distance.table = '/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/distance_table.tab'; alignment.file = '/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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 = 'cor_0.6_Ncor_0.5_'; out.prefix = '/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering'; "


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_1_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_2_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_3_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_4_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_5_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_6_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_7_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_8_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_9_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_10_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_11_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_12_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_13_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_14_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_15_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_16_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/cluster_17_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_data/cluster_17_transfac_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m21_SRSYRKVTFK_HTCS_Man-1_3_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m5_SSWRKTEHFS_RhaR_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m18_GTVYRPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m4_GTVYKPYYSK_HTCS_Rgu-2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m24_GTVYKPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m18_GTVYRPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m4_GTVYKPYYSK_HTCS_Rgu-2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m2_GSIYRPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m24_GTVYKPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m18_GTVYRPFYSK_HTCS_Rgu-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m4_GTVYKPYYSK_HTCS_Rgu-2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices_temp.tf -from tf -to tf  -attr name cluster_10 -attr accession cluster_10 -set_attr merged_AC 'Collection_1:::SRSYRKVTFK_HTCS_Man-1_3' -set_attr merged_ID 'SRSYRKVTFK_HTCS_Man-1_3' -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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices_temp.tf -from tf -to tf  -attr name cluster_11 -attr accession cluster_11 -set_attr merged_AC 'Collection_1:::SSWRKTEHFS_RhaR' -set_attr merged_ID 'SSWRKTEHFS_RhaR' -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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_node_3_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/IC_test_2026-01-20.135205_WAv6sN


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_2/cluster_1_nb_motifs_3.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135205_jqe4ml


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_3/cluster_1_nb_motifs_4.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/IC_test_2026-01-20.135205_4VUb3I


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m22_SASYTISYST_HTCS_Ogl-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m9_SSSYRPKYAT_HTCS_Aga-1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices_temp.tf -from tf -to tf  -attr name cluster_12 -attr accession cluster_12 -set_attr merged_AC 'Collection_1:::SASYTISYST_HTCS_Ogl-2' -set_attr merged_ID 'SASYTISYST_HTCS_Ogl-2' -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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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 'Collection_1:::SSSYRPKYAT_HTCS_Aga-1' -set_attr merged_ID 'SSSYRPKYAT_HTCS_Aga-1' -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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m23_SRVRQSNYSV_RhaR_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m15_SSTYRTVYRQ_HTCS_Ara-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m25_SKQYRHSYSK_HTCS_Pga_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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 'Collection_1:::SSTYRTVYRQ_HTCS_Ara-2' -set_attr merged_ID 'SSTYRTVYRQ_HTCS_Ara-2' -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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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 'Collection_1:::SRVRQSNYSV_RhaR' -set_attr merged_ID 'SRVRQSNYSV_RhaR' -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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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 'Collection_1:::SKQYRHSYSK_HTCS_Pga' -set_attr merged_ID 'SKQYRHSYSK_HTCS_Pga' -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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m17_SYHHRTSYIT_AdaA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m10_SVQYRPSYAK_HTCS_Fru_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m20_SVQYRPSYTK_HTCS_Fru_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m13_SSLNKPKYAR_HTCS_Ara-1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m16_SSLNKPKYTR_HTCS_Ara-1_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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 'Collection_1:::SYHHRTSYIT_AdaA' -set_attr merged_ID 'SYHHRTSYIT_AdaA' -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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_3/merged_consensuses/node_1/cluster_3_node_1_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/IC_test_2026-01-20.135208_GWH6vo


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/IC_test_2026-01-20.135208_xUEFLS


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m8_GVQYRPSYTR_HTCS_Fru_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m10_SVQYRPSYAK_HTCS_Fru_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m20_SVQYRPSYTK_HTCS_Fru_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m19_PRTHRSNHST_RhaS_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m27_PRTNRSNYSS_RhaS_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_2/cluster_2_node_2_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_4/merged_consensuses/node_1/cluster_4_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/IC_test_2026-01-20.135209_5Si3yc


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/IC_test_2026-01-20.135209_kpvRkl


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m1_SSNHLSSYAT_HTCS_Hep_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m6_SSNHLPSYAT_HTCS_Hep_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_5/merged_consensuses/node_1/cluster_5_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/IC_test_2026-01-20.135210_lE0H4m


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m12_SSRSHQLYSR_AraC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m14_SSRAHQLYSR_AraC_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_cat.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m26_SSVFKPRYSK_HTCS_Rgu-1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m28_SSTYRTGYRQ_HTCS_Ara-2_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_6/merged_consensuses/node_1/cluster_6_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/IC_test_2026-01-20.135211_NEhn36


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/IC_test_2026-01-20.135211_N1KlZd


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m3_SSTYRSVYRQ_HTCS_Ara-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m7_ATNFTSRYSK_HTCS_Hya_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_8/merged_consensuses/node_1/cluster_8_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/IC_test_2026-01-20.135212_XvD6fh


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/Collection_1_m11_SRQYRRGTYK_HTCS_Man-2_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices_temp.tf -from tf -to tf  -attr name cluster_9 -attr accession cluster_9 -set_attr merged_AC 'Collection_1:::SRQYRRGTYK_HTCS_Man-2' -set_attr merged_ID 'SRQYRRGTYK_HTCS_Man-2' -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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


rm -r /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_portable_logo_tree.html


mv /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_temporary.html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_logo_tree.html


mv /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/distance_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/alignment_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/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/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters_motif_names.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_tables/clusters_motif_names.html


mv -f /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2026/01/20/matrix-clustering_2026-01-20.135154_9CRruF/matrix-clustering_portable_logo_tree.html
