rsync -ruptl /var/www/html/rsat/perl-scripts/lib/js /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF
rsync -ruptl /var/www/html/rsat/public_html/images/program_icons/matrix-clustering_icons /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_query_matrices.homer -from homer -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/wt_top1_input_motifs_processed_1.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/wt_top1_input_motifs_processed_1.tf -from tf -to transfac -prefix_id wt_top1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/wt_top1_input_motifs_processed.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/wt_top1_input_motifs_processed.tf > /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -split -from tf -to tf -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/pairwise_compa.tab'; hclust.method = 'average'; description.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab'; distance.table = '/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/distance_table.tab'; alignment.file = '/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/alignment_table.tab'; verbosity = 0; metric = 'cor'; 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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering'; "
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_1_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_2_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_3_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_4_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_5_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_6_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_7_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_8_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_9_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_10_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_11_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_12_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_13_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_14_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_15_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_16_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_17_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_18_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_19_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_20_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_21_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/cluster_21_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_22_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/cluster_22_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_23_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/cluster_23_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_24_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/cluster_24_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_25_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/cluster_25_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_26_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/cluster_26_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_27_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/cluster_27_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_28_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/cluster_28_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_29_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/cluster_29_transfac_motifs.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf -from tf -to tf -matrix_id_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/cluster_30_motif_IDs.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/cluster_30_transfac_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m23_homer_23.AGTCTGAACA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_1/cluster_1_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m7_homer_7.GYCATTGTKAAT_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m12_homer_12.CCAATCCAAT_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices_temp.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_1/cluster_1_matrices_temp.tf -from tf -to tf -attr name cluster_1 -attr accession cluster_1 -set_attr merged_AC 'wt_top1:::homer_23.AGTCTGAACA' -set_attr merged_ID 'homer_23.AGTCTGAACA' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_1/cluster_1_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_7.GYCATTGTKAAT' -set_attr merged_ID 'homer_7.GYCATTGTKAAT' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_12.CCAATCCAAT' -set_attr merged_ID 'homer_12.CCAATCCAAT' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_1/cluster_1_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_11/cluster_11_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_10/cluster_10_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m4_homer_4.GGGCACSAVTCC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m10_homer_10.GCAGAGTCTT_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m27_homer_27.NNCTTGGTCCGN_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices_temp.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_4.GGGCACSAVTCC' -set_attr merged_ID 'homer_4.GGGCACSAVTCC' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_27.NNCTTGGTCCGN' -set_attr merged_ID 'homer_27.NNCTTGGTCCGN' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_10.GCAGAGTCTT' -set_attr merged_ID 'homer_10.GCAGAGTCTT' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_14/cluster_14_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_13/cluster_13_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_12/cluster_12_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m24_homer_24.GAGGACAGGT_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m5_homer_5.CCAAAAACCTCT_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m32_homer_32.AGTWYCTATTCT_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_5.CCAAAAACCTCT' -set_attr merged_ID 'homer_5.CCAAAAACCTCT' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_32.AGTWYCTATTCT' -set_attr merged_ID 'homer_32.AGTWYCTATTCT' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_24.GAGGACAGGT' -set_attr merged_ID 'homer_24.GAGGACAGGT' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_17/cluster_17_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_16/cluster_16_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_15/cluster_15_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m9_homer_9.AGGAATTTAGKM_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_18/cluster_18_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m30_homer_30.AATTAGTC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_2/cluster_2_matrices_temp.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m14_homer_14.ARGCACDGYG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m29_homer_29.TAAGCCACAG_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_19/merged_consensuses/node_1/cluster_19_node_1_cat.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_9.AGGAATTTAGKM' -set_attr merged_ID 'homer_9.AGGAATTTAGKM' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_2/cluster_2_matrices_temp.tf -from tf -to tf -attr name cluster_2 -attr accession cluster_2 -set_attr merged_AC 'wt_top1:::homer_30.AATTAGTC' -set_attr merged_ID 'homer_30.AATTAGTC' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_2/cluster_2_matrices.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_19/merged_consensuses/node_1/cluster_19_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_19 -name cluster_19 -calc mean -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_19/merged_consensuses/node_1/cluster_19_node_1_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_19/merged_consensuses/node_1/cluster_19_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/IC_test_2025-05-30.140321_QBeSQ7
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_2/cluster_2_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_18/cluster_18_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_19/merged_consensuses/node_1/cluster_19_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m1_homer_1.GGTAGCCGGCTD_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m25_homer_25.CCCGGCTCGGGA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices_temp.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_1.GGTAGCCGGCTD' -set_attr merged_ID 'homer_1.GGTAGCCGGCTD' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_25.CCCGGCTCGGGA' -set_attr merged_ID 'homer_25.CCCGGCTCGGGA' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_20/cluster_20_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_21/cluster_21_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m21_homer_21.TCYGGWCCGGAN_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_23/cluster_23_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m22_homer_22.GAAYAGGTGAGA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_24/cluster_24_matrices_temp.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m13_homer_13.TGTRCCSCAGWY_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m8_homer_8.GTCTGGCGCA_aligned.tf >/var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_22/merged_consensuses/node_1/cluster_22_node_1_cat.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_23/cluster_23_matrices_temp.tf -from tf -to tf -attr name cluster_23 -attr accession cluster_23 -set_attr merged_AC 'wt_top1:::homer_21.TCYGGWCCGGAN' -set_attr merged_ID 'homer_21.TCYGGWCCGGAN' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_23/cluster_23_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_24/cluster_24_matrices_temp.tf -from tf -to tf -attr name cluster_24 -attr accession cluster_24 -set_attr merged_AC 'wt_top1:::homer_22.GAAYAGGTGAGA' -set_attr merged_ID 'homer_22.GAAYAGGTGAGA' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_24/cluster_24_matrices.tf
/var/www/html/rsat/perl-scripts/merge-matrices -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_22/merged_consensuses/node_1/cluster_22_node_1_cat.tf -v 0 -in_format tf -out_format tf -id cluster_22 -name cluster_22 -calc mean -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_22/merged_consensuses/node_1/cluster_22_node_1_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_23/cluster_23_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_24/cluster_24_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_22/merged_consensuses/node_1/cluster_22_nb_motifs_2.tf -from tf -return info,header,margins -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/IC_test_2025-05-30.140323_GwOdkC
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_22/merged_consensuses/node_1/cluster_22_node_1_trimmed_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m16_homer_16.CCGGGCTACTTG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_25/cluster_25_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m17_homer_17.GACMGCTKCT_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_26/cluster_26_matrices_temp.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_25/cluster_25_matrices_temp.tf -from tf -to tf -attr name cluster_25 -attr accession cluster_25 -set_attr merged_AC 'wt_top1:::homer_16.CCGGGCTACTTG' -set_attr merged_ID 'homer_16.CCGGGCTACTTG' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_25/cluster_25_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_26/cluster_26_matrices_temp.tf -from tf -to tf -attr name cluster_26 -attr accession cluster_26 -set_attr merged_AC 'wt_top1:::homer_17.GACMGCTKCT' -set_attr merged_ID 'homer_17.GACMGCTKCT' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_26/cluster_26_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_26/cluster_26_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_25/cluster_25_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m18_homer_18.GAACCAGACAGC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_27/cluster_27_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m15_homer_15.CTCGAGTCGMGM_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_28/cluster_28_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m6_homer_6.WACACCCRYAMR_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_29/cluster_29_matrices_temp.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_27/cluster_27_matrices_temp.tf -from tf -to tf -attr name cluster_27 -attr accession cluster_27 -set_attr merged_AC 'wt_top1:::homer_18.GAACCAGACAGC' -set_attr merged_ID 'homer_18.GAACCAGACAGC' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_27/cluster_27_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_29/cluster_29_matrices_temp.tf -from tf -to tf -attr name cluster_29 -attr accession cluster_29 -set_attr merged_AC 'wt_top1:::homer_6.WACACCCRYAMR' -set_attr merged_ID 'homer_6.WACACCCRYAMR' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_29/cluster_29_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_28/cluster_28_matrices_temp.tf -from tf -to tf -attr name cluster_28 -attr accession cluster_28 -set_attr merged_AC 'wt_top1:::homer_15.CTCGAGTCGMGM' -set_attr merged_ID 'homer_15.CTCGAGTCGMGM' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_28/cluster_28_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_28/cluster_28_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_29/cluster_29_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_27/cluster_27_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m11_homer_11.GTGAGTGGACCA_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_3/cluster_3_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m28_homer_28.CTTAGAATCCAG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_30/cluster_30_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m19_homer_19.TCTGGTGAGT_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_4/cluster_4_matrices_temp.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_3/cluster_3_matrices_temp.tf -from tf -to tf -attr name cluster_3 -attr accession cluster_3 -set_attr merged_AC 'wt_top1:::homer_11.GTGAGTGGACCA' -set_attr merged_ID 'homer_11.GTGAGTGGACCA' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_3/cluster_3_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_19.TCTGGTGAGT' -set_attr merged_ID 'homer_19.TCTGGTGAGT' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_4/cluster_4_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_30/cluster_30_matrices_temp.tf -from tf -to tf -attr name cluster_30 -attr accession cluster_30 -set_attr merged_AC 'wt_top1:::homer_28.CTTAGAATCCAG' -set_attr merged_ID 'homer_28.CTTAGAATCCAG' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_30/cluster_30_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_3/cluster_3_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_4/cluster_4_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_30/cluster_30_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m20_homer_20.CAATCGCG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_5/cluster_5_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m2_homer_2.RAGTTCCGCGSG_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_6/cluster_6_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m31_homer_31.CACGGGAC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_7/cluster_7_matrices_temp.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_20.CAATCGCG' -set_attr merged_ID 'homer_20.CAATCGCG' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_7/cluster_7_matrices_temp.tf -from tf -to tf -attr name cluster_7 -attr accession cluster_7 -set_attr merged_AC 'wt_top1:::homer_31.CACGGGAC' -set_attr merged_ID 'homer_31.CACGGGAC' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_7/cluster_7_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_2.RAGTTCCGCGSG' -set_attr merged_ID 'homer_2.RAGTTCCGCGSG' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_6/cluster_6_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_7/cluster_7_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_6/cluster_6_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_5/cluster_5_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m3_homer_3.CCCGTGTGGGCC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices_temp.tf
cp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/wt_top1_m26_homer_26.TGTGTATTCCAC_aligned.tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_3.CCCGTGTGGGCC' -set_attr merged_ID 'homer_3.CCCGTGTGGGCC' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices.tf
/var/www/html/rsat/perl-scripts/convert-matrix -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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 'wt_top1:::homer_26.TGTGTATTCCAC' -set_attr merged_ID 'homer_26.TGTGTATTCCAC' -set_attr type merge -set_attr merge_type mean -set_attr merge_nb 1 -v 1 -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_9/cluster_9_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
cat /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_clusters_information/cluster_8/cluster_8_matrices.tf >> /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
rm -r /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_portable_logo_tree.html
mv /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_temporary.html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_logo_tree.html
mv /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/distance_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/alignment_table.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/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/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters.html
/var/www/html/rsat/perl-scripts/text-to-html -i /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters_motif_names.tab -o /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters_motif_names.html
mv -f /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_temporary_2.html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_portable_logo_tree.html
; matrix-clustering -v 1 -max_matrices 300 -matrix wt_top1 $RSAT/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_query_matrices.homer homer -hclust_method average -calc mean -title wt_top1 -metric_build_tree cor -lth w 5 -lth cor 0.6 -lth Ncor 0.4 -quick -label_in_tree name -return json,heatmap -o $RSAT/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering
; Program version 1.05
; Number of matrices 32
; Output files
; distance_table_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/distance_table.html
; coverage_table /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters_summary_coverage_contingency_table.tab
; heatmap_coverage_d3 /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/convergency_heatmap_tab.tsv
; heatmap_collections_attributes /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/collection_heatmap_order.tab
; matrix_descriptions /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/pairwise_compa_matrix_descriptions.tab
; matrix_descriptions_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_html/pairwise_compa_matrix_descriptions.html
; motif_richness_barplot_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_motif_richness_barplot.html
; summary /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_SUMMARY.html
; small_logo_cladogram_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_portable_logo_tree.html
; alignment_table /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/alignment_table.tab
; heatmap_jpg /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_figures/heatmap.jpg
; clusters_table_motif_names /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters_motif_names.tab
; temp_html_2 /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_temporary_2.html
; root_motifs_table /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_root_motifs_table.tab
; consensus_cladogram_json /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_trees/tree.json
; clusters_table_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters.html
; html_index /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_html/index.html
; nb_clusters_table /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/number_of_clusters.tab
; heatmap_coverage_attributes /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/convergency_heatmap_attributes.tab
; summary_temp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_SUMMARY_TEMP.html
; temp_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_temporary.html
; pairwise_compa /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/pairwise_compa.tab
; cluster_IDs_names /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_cluster_IDs.txt
; central_motifs /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_central_motifs_IDs.tab
; err_log /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_errors.txt
; heatmap_collections_d3 /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/collection_heatmap_tab.tsv
; int_align /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/intermediate_alignments.tab
; percent_table /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters_summary_percent_table.tab
; ref_collection_tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_reference_collection.tf
; root_motifs /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_cluster_root_motifs.tf
; alignment_table_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/alignment_table.html
; internal_nodes_attributes_table /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/internal_nodes_attributes.tab
; pairwise_compa_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_html/pairwise_compa.html
; small_forest_export /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_small_forest.html
; input_matrices /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf
; radial_tree /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_radial_tree.html
; archive /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_archive.zip
; reference_compa_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_html/Root_vs_reference_collection_compa.html
; clusters_table_motif_names_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters_motif_names.html
; prefix /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering
; radial_tree_template /var/www/html/rsat/public_html/templates_html/Radial_tree_template.html
; hexa_colors /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_hexa_colors.txt
; all_concatenated_motifs /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_aligned_logos/All_concatenated_motifs.tf
; central_motifs_tf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_central_motifs_transfac.tf
; distance_table /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/distance_table.tab
; motif_richness_tsv /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_motif_richness.tsv
; log /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_log.txt
; central_motifs_IDs_temp /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_central_motifs_IDs_temporal.tab
; temp_html_3 /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_temporary_3.html
; heatmap_pdf /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_figures/heatmap.pdf
; coverage_json_folder /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_coverage_json
; dynamic_coverage_heatmap_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_dynamic_coverage_heatmap.html
; logo_cladogram_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_logo_tree.html
; dynamic_heatmap_html /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_dynamic_heatmap.html
; motif_file /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data/input_motifs_processed.tf
; reference_compa /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/Root_vs_reference_collection_compa.tab
; Rlog /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_Rlog.txt
; clusters_table /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters.tab
; cluster_summary_table /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_tables/clusters_summary_table.tab
; Directories
; data /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF/matrix-clustering_data
; output /var/www/html/rsat/public_html/tmp/www-data/2025/05/30/matrix-clustering_2025-05-30.140306_psZTRF
; Host name rsat
; Job started 2025-05-30.140307
; Job done 2025-05-30.140331
; Seconds 0.82
; user 0.82
; system 0.39
; cuser 30.4
; csystem 8.7