

rsync -ruptl /var/www/html/rsat/perl-scripts/lib/js /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh


rsync -ruptl /var/www/html/rsat/public_html/images/program_icons/matrix-clustering_icons /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_query_matrices.transfac -from transfac -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/oct4_peak_motifs_permuted_input_motifs_processed_1.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/oct4_peak_motifs_permuted_input_motifs_processed_1.tf -from tf -to transfac -prefix_id oct4_peak_motifs_permuted -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/oct4_peak_motifs_permuted_input_motifs_processed.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/oct4_peak_motifs_permuted_input_motifs_processed.tf  > /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -split -from tf -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/pairwise_compa.tab'; hclust.method = 'average'; description.file = '/var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab'; distance.table = '/var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/distance_table.tab'; alignment.file = '/var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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_0.4_'; out.prefix = '/var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering'; "


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_1_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_2_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_3_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_4_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_5_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_6_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_7_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_8_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_9_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_10_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_11_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_12_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_13_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_14_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_15_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_16_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/cluster_17_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_data/cluster_17_transfac_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m14_local_words_7nt_m2_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m16_positions_7nt_m1_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m18_positions_7nt_m3_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m8_positions_6nt_m2_perm1_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_cat.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_1/merged_consensuses/node_1/cluster_1_node_1_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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 'oct4_peak_motifs_permuted:::positions_7nt_m1_perm1' -set_attr merged_ID 'positions_7nt_m1_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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 'oct4_peak_motifs_permuted:::local_words_7nt_m2_perm1' -set_attr merged_ID 'local_words_7nt_m2_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/IC_test_2026-05-11.053655_z70Psx


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m1_oligos_6nt_mkv4_m1_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m13_local_words_7nt_m1_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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 'oct4_peak_motifs_permuted:::oligos_6nt_mkv4_m1_perm1' -set_attr merged_ID 'oligos_6nt_mkv4_m1_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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 'oct4_peak_motifs_permuted:::local_words_7nt_m1_perm1' -set_attr merged_ID 'local_words_7nt_m1_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m17_positions_7nt_m2_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m6_local_words_6nt_m3_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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 'oct4_peak_motifs_permuted:::positions_7nt_m2_perm1' -set_attr merged_ID 'positions_7nt_m2_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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 'oct4_peak_motifs_permuted:::local_words_6nt_m3_perm1' -set_attr merged_ID 'local_words_6nt_m3_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m4_local_words_6nt_m1_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m9_positions_6nt_m3_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m19_dyads_m1_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m20_dyads_m2_perm1_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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 'oct4_peak_motifs_permuted:::local_words_6nt_m1_perm1' -set_attr merged_ID 'local_words_6nt_m1_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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 'oct4_peak_motifs_permuted:::positions_6nt_m3_perm1' -set_attr merged_ID 'positions_6nt_m3_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_2/merged_consensuses/node_1/cluster_2_node_1_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/IC_test_2026-05-11.053658_dBxFCk


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m12_oligos_7nt_mkv5_m3_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_4/cluster_4_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m5_local_words_6nt_m2_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m7_positions_6nt_m1_perm1_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_4/cluster_4_matrices_temp.tf -from tf -to tf  -attr name cluster_4 -attr accession cluster_4 -set_attr merged_AC 'oct4_peak_motifs_permuted:::oligos_7nt_mkv5_m3_perm1' -set_attr merged_ID 'oligos_7nt_mkv5_m3_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_4/cluster_4_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_4/cluster_4_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/IC_test_2026-05-11.053659_jsEDUW


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m10_oligos_7nt_mkv5_m1_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_5/cluster_5_matrices_temp.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m11_oligos_7nt_mkv5_m2_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_6/cluster_6_matrices_temp.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_5/cluster_5_matrices_temp.tf -from tf -to tf  -attr name cluster_5 -attr accession cluster_5 -set_attr merged_AC 'oct4_peak_motifs_permuted:::oligos_7nt_mkv5_m1_perm1' -set_attr merged_ID 'oligos_7nt_mkv5_m1_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_5/cluster_5_matrices.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_6/cluster_6_matrices_temp.tf -from tf -to tf  -attr name cluster_6 -attr accession cluster_6 -set_attr merged_AC 'oct4_peak_motifs_permuted:::oligos_7nt_mkv5_m2_perm1' -set_attr merged_ID 'oligos_7nt_mkv5_m2_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_6/cluster_6_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_6/cluster_6_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_5/cluster_5_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m2_oligos_6nt_mkv4_m2_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices_temp.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m15_local_words_7nt_m3_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m21_dyads_m3_perm1_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_cat.tf


/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices_temp.tf -from tf -to tf  -attr name cluster_8 -attr accession cluster_8 -set_attr merged_AC 'oct4_peak_motifs_permuted:::oligos_6nt_mkv4_m2_perm1' -set_attr merged_ID 'oligos_6nt_mkv4_m2_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices.tf


/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_7/merged_consensuses/node_1/cluster_7_node_1_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/IC_test_2026-05-11.053701_Kzs3nE


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


cp /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/oct4_peak_motifs_permuted_m3_oligos_6nt_mkv4_m3_perm1_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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 'oct4_peak_motifs_permuted:::oligos_6nt_mkv4_m3_perm1' -set_attr merged_ID 'oligos_6nt_mkv4_m3_perm1' -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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf


cat /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_aligned_logos/All_concatenated_motifs.tf


rm -r /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_portable_logo_tree.html


mv /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_temporary.html /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_logo_tree.html


mv /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/distance_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/alignment_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/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/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/clusters.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/clusters.html


/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/clusters_motif_names.tab -o /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_tables/clusters_motif_names.html


mv -f /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2026/05/11/matrix-clustering_2026-05-11.053641_UD6eCh/matrix-clustering_portable_logo_tree.html
