can't visualize output of hicat

[PengfeiInTuebingen]

Dear developer, I successfully installed this by conda and I also test this tool using the test data you provided, I got the output like those: [$]~> ls HiCAT_out final_decomposition.tsv out_all_layer4.xls out_cluster_3.xls out_final_hor3.xls out_monomer_seq_3.xls out_top_layer12.xls final_decomposition_alt.tsv out_all_layer5.xls out_cluster_4.xls out_final_hor4.xls out_monomer_seq_4.xls out_top_layer2.xls final_decomposition_raw.tsv out_all_layer6.xls out_cluster_5.xls out_final_hor5.xls out_monomer_seq_5.xls out_top_layer3.xls input_fasta.1.fa out_all_layer7.xls out_cluster_6.xls out_final_hor6.xls out_monomer_seq_6.xls out_top_layer4.xls log.txt out_all_layer8.xls out_cluster_7.xls out_final_hor7.xls out_monomer_seq_7.xls out_top_layer5.xls out out_all_layer9.xls out_cluster_8.xls out_final_hor8.xls out_monomer_seq_8.xls out_top_layer6.xls out_all_layer0.xls out_block.sequences out_cluster_9.xls out_final_hor9.xls out_monomer_seq_9.xls out_top_layer7.xls out_all_layer1.xls out_cluster_0.xls out_final_hor0.xls out_monomer_seq_0.xls out_pre_merge.xls out_top_layer8.xls out_all_layer10.xls out_cluster_1.xls out_final_hor1.xls out_monomer_seq_1.xls out_statistics.xls out_top_layer9.xls out_all_layer11.xls out_cluster_10.xls out_final_hor10.xls out_monomer_seq_10.xls out_top_layer0.xls stringdecomposer.log out_all_layer12.xls out_cluster_11.xls out_final_hor11.xls out_monomer_seq_11.xls out_top_layer1.xls out_all_layer2.xls out_cluster_12.xls out_final_hor12.xls out_monomer_seq_12.xls out_top_layer10.xls out_all_layer3.xls out_cluster_2.xls out_final_hor2.xls out_monomer_seq_2.xls out_top_layer11.xls

When I want to visualize those results by visualization.py, I got the error: [$]~> python visualization.py -r HiCAT_out/ Traceback (most recent call last): File "/ebio/abt5_projects/3D_genome_of_brown_algae/data/software/HiCAT/visualization.py", line 490, in main() File "/ebio/abt5_projects/3D_genome_of_brown_algae/data/software/HiCAT/visualization.py", line 483, in main getResult(base_sequence, result_dir, similarity, show_hor_number, show_hor_min_repeat_number) File "/ebio/abt5_projects/3D_genome_of_brown_algae/data/software/HiCAT/visualization.py", line 357, in getResult pattern_file = outdir + '/out_final_hor' + similarity + '.xls' # 存在更新 TypeError: can only concatenate str (not "NoneType") to str do you have any idea about this? Best, PF

[865699871]

Hi, thank you for using HiCAT. HiCAT default output the result of similarity with the largest HOR coverage in ./out .

We also provide additional script ’visualization.py‘ to visualize other similarity. For example, 0 represents 0.94, 1 represents 0.945 and 2 represents 0.95 in default. Except for ' -r ./HiCAT_out ', you need to add ' -s ' with a number to select which similarity result you want to visualize. For example, ' python visualization.py -r ./HiCAT_out -s 0 ' for parameter similarity=0.94.

Other parameter -sp represent the number of top HORs. default is 5. -sn is the minimum repeat number of HOR. default is 10.

[865699871]

The HOR coverage of different similarity is in ./HiCAT_out/out/sort_statistics.xls.