An 'problem reading number of species and sites' and 'There is no file or directory'error occurred while running run_example.sh on the data in example

[lanlan0210]

hi, I'm sorry to bother you. I've just started using this script and it's very useful. But I met an error when while running run_example.sh on the data in example. All four of the dependent programs have been installed successfully. The error message is as follows:

ERROR: Problem reading number of species and sites Option -T does not have any effect with the sequential or parallel MPI version. It is used to specify the number of threads for the Pthreads-based parallelization ERROR: Problem reading number of species and sites cat: RAxML_bipartitions.OG0008848_out.nwk: There is no file or directory.

Step4: Construct the ML species tree with the concatenate method.

/home/xxx/software/raxmal/RAxML-7.2.8-ALPHA/raxmlHPC -T 12 -f a -N 10 -m PROTGAMMAJTT -x 123456 -p 123456 -s ../SingleGene_MSA/merged_allSingleGenes.fas -n concatenation_out.nwk ERROR: [2020-08-18 13:33:48.497247] Return code 255 when running the following command: /home/xxx/software/raxmal/RAxML-7.2.8-ALPHA/raxmlHPC -T 12 -f a -N 10 -m PROTGAMMAJTT -x 123456 -p 123456 -s ../SingleGene_MSA/merged_allSingleGenes.fas -n concatenation_out.nwk Step5: Construct the ML species tree with the coalescent method.

/home/xxx/software/raxmal/RAxML-7.2.8-ALPHA/raxmlHPC -T 12 -f a -N 10 -m PROTGAMMAJTT -x 123456 -p 123456 -s ../SingleGene_MSA/OG0008848_aln_trimed.fas -n OG0008848_out.nwk ERROR: [2020-08-18 13:33:48.510839] Return code 255 when running the following command: /home/xxx/software/raxmal/RAxML-7.2.8-ALPHA/raxmlHPC -T 12 -f a -N 10 -m PROTGAMMAJTT -x 123456 -p 123456 -s ../SingleGene_MSA/OG0008848_aln_trimed.fas -n OG0008848_out.nwk cat RAxML_bipartitions.OG0008848_out.nwk >>allSingleGenes_tree.nwk ERROR: [2020-08-18 13:33:48.520866] Return code 1 when running the following command: cat RAxML_bipartitions.OG0008848_out.nwk >>allSingleGenes_tree.nwk echo ./RAxML_bootstrap.OG0008848_out.nwk >>allSingleGenes_bootstrap.txt /home/xxx/software/raxmal/RAxML-7.2.8-ALPHA/raxmlHPC -T 12 -f a -N 10 -m PROTGAMMAJTT -x 123456 -p 123456 -s ../SingleGene_MSA/OG0008849_aln_trimed.fas -n OG0008849_out.nwkOption -T does not have any effect with the sequential or parallel MPI version. It is used to specify the number of threads for the Pthreads-based parallelization ERROR: Problem reading number of species and sites cat: RAxML_bipartitions.OG0008849_out.nwk: There is no file or directory

Looking forward to your reply. Thank you very much !