burkholderab
commented
3 years ago Any standard FASTA file, such as those you describe, should be compatible. The various non-letter characters in the error suggest that the tool may be attempting to process a binary rather than plaintext file. Is it possible that your FASTA is compressed? If you send a copy of the command you ran to receive this output, I may be able to provide further suggestions.
From: Pilibeibei notifications@github.com Sent: Friday, December 18, 2020 12:10 PM To: NIEHS/ROTLA ROTLA@noreply.github.com Cc: Subscribed subscribed@noreply.github.com Subject: [NIEHS/ROTLA] mtDNA reference sequence invalid (#2)
I used rCRS (NC_012920) as mtDNA reference sequence and received error as "Invalid fasta format: sequence size == 0". I also tried reference sequence file "chrM.fa" from MToolBox, and received same error. Would you please provide a sample of data format you used as chrM reference sequence. It would be helpful for users to follow the process of the tool. Thanks!
Error message: Invalid fasta format: sequence size == 0 for element (J�r ���id�0G� Invalid fasta format: sequence size == 0 for element z��S�ߍ�!�>��,���5!� Invalid fasta format: sequence size == 0 for element �J����o�6��R�HpTFB�o�4�\ń��1��/4˚ Invalid fasta format: sequence size == 0 for element A5�'c� Invalid fasta format: sequence size == 0 for element V���e���l���k{����t"�����ٍ;Qa-��,��:v4��Sq���T��D=AF������H,t6%a��!������K Invalid fasta format: sequence size == 0 for element �͎6�!��PB�'����O>�x�]���+�yړ���p�q?�ʸ� Invalid fasta format: sequence size == 0 for element ����ܝ3~0�'"`��g��F� Invalid fasta format: sequence size == 0 for element ث.��A Invalid fasta format: sequence size == 0 for element =p�/�x�^�hP������+f�i�-��$�ݴ��G�Yvp���G�yպ�HRi��I�X�D�$��/j�m��r��I�C�� Invalid fasta format: sequence size == 0 for element &Ni� Invalid fasta format: sequence size == 0 for element �#��7��χ�t-^��ʷl�er��g�xJ�6M������4�+�L}
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Pilibeibei
I used rCRS (NC_012920) as mtDNA reference sequence and received error as "Invalid fasta format: sequence size == 0". I also tried reference sequence file "chrM.fa" from MToolBox, and received same error. Would you please provide a sample of data format you used as chrM reference sequence. It would be helpful for users to follow the process of the tool. Thanks!
Error message: Invalid fasta format: sequence size == 0 for element (J
�r ���id�0G� Invalid fasta format: sequence size == 0 for element z��S�ߍ�!�>��,���5!� Invalid fasta format: sequence size == 0 for element �J����o�6��R�HpTFB�o�4�\ń��1��/4˚ Invalid fasta format: sequence size == 0 for element A5�'c� Invalid fasta format: sequence size == 0 for element V���e���l���k{����t"�����ٍ;Qa-��,��:v4��Sq���T��D=AF������H,t6%a��!������K Invalid fasta format: sequence size == 0 for element �͎6�!��PB�'����O>�x�]���+�yړ���p�q?�ʸ� Invalid fasta format: sequence size == 0 for element ����ܝ3~0�'"`��g��F� Invalid fasta format: sequence size == 0 for element ث.��A Invalid fasta format: sequence size == 0 for element =p�/�x�^�hP������+f�i�-��$�ݴ��G�Yvp���G�yպ�HRi��I�X�D�$��/j�m��r��I�C�� Invalid fasta format: sequence size == 0 for element &Ni� Invalid fasta format: sequence size == 0 for element �#��7��χ�t-^��ʷl�er��g�xJ�6M������4�+�L}