problem running Gblocks

[danvso]

I installed metapathways, but due we have had a versión of glibc, I changed genewise and hmmalign to a compiled/binary version of them (because the ones that comes by default in metapathways only supports glibc.2.14 and we are with glibc2.11 version. When ran the test we get the following error:

COMMAND : mltreemap/mltreemap_calculation/mltreemap.pl -i test//regression_test/preprocessed//regression_test.fasta -o test//regression_test/mltreemap_calculations/ -e executables/linux/bit64/ Error!: Start MLTreeMap v2.061 run BLAST run Genewise run hmmalign run Gblocks ERROR: Can't open test//regression_test/mltreemap_calculations/various_outputs/c_regression_test_8.mfa-gb!

In fact, there there isn't a file with mfa-gb extension:

[user@machine]# ls c_regression_test_8.mfa p_regression_test_6_COG0080_346_603.mfa regression_test_21_sequence.txt regression_test_6_sequence.txt c_regression_test_8_phocryp_23_789.fa p_regression_test_6_COG0081_5_310.fa regression_test_22_blast_result_purified.txt regression_test_7_blast_result_purified.txt c_regression_test_8_phocryp_23_789.mfa p_regression_test_6_COG0081_5_310.mfa regression_test_22_genewise_result_summary.txt regression_test_7_COG0085_genewise.txt h_regression_test_11K02588_322_851.fa p_regression_test_6.mfa regression_test_22__K02588_genewise.txt regression_test_7_genewise_result_summary.txt h_regression_test_11K02588_322_851.mfa p_regression_test_7_COG0085_157_873.fa regression_test_22_sequence_shortened.txt regression_test_7_sequence_shortened.txt h_regression_test_11.mfa p_regression_test_7_COG0085_157_873.mfa regression_test_22_sequence.txt regression_test_7_sequence.txt h_regression_test_22K02588_3_359.fa p_regression_test_7.mfa regression_test_23_blast_result_purified.txt regression_test_8_blast_result_purified.txt h_regression_test_22K02588_3_359.mfa regression_test_11_blast_result_purified.txt regression_test_23_genewise_result_summary.txt regression_test_8_genewise_result_summary.txt h_regression_test_22.mfa regression_test_11_genewise_result_summary.txt regression_test_23_p_a_moA_genewise.txt regression_test_8_phocryp_genewise.txt m_regression_test_23.mfa regression_test_11K02588_genewise.txt regression_test_23_sequence_shortened.txt regression_test_8_sequence_shortened.txt m_regression_test_23_p_a_moA_3_491.fa regression_test_11_sequence_shortened.txt regression_test_23_sequence.txt regression_test_8_sequence.txt m_regression_test_23_p_a_moA_3_491.mfa regression_test_11_sequence.txt regression_test_6_blast_result_purified.txt regression_test.fasta_0BLAST_results_raw.txt n_regression_test_21K02586_33_1439.fa regression_test_21_blast_result_purified.txt regression_test_6_COG0080_genewise.txt regression_test.fasta_formated.txt n_regression_test_21K02586_33_1439.mfa regression_test_21_genewise_result_summary.txt regression_test_6_COG0081_genewise.txt n_regression_test_21.mfa regression_test_21K02586_genewise.txt regression_test_6_genewise_result_summary.txt p_regression_test_6_COG0080_346_603.fa regression_test_21_sequence_shortened.txt regression_test_6_sequence_shortened.txt

Appreciate your ideas and comments,

[ariahahn]

Please use the newest version of MP available on the hallamlab github repository.

[hallamlab]

Please use the newest version of MP on GitHub