Comments (3)
Thanks for your reply,
Fortunatly, this bug is just shown in the visualize module and other function can properly run. Anyway, MitoZ is an excellent software.👍
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there is the related software version in my conda environment:
perl-gd 2.76 pl5321h5b5514e_1 bioconda
mitoz 3.6 pyhdfd78af_1 bioconda
from mitoz.
Hi @klcym ,
Indeed, this happened to me too before, and I couldn't figure it out even after I have spent a lot of time on it. So please try to figure it out by yourself, or you can try other installation methods.
The easiest way to install MitoZ is to use Apptainer/Singularity and Docker (or Udocker) MitoZ images, which can help you avoid a lot of potential installation troubles. The Conda-Pack version may also be helpful, because, unlike the usual Conda installation method, its tar file has packed all dependencies so there is no need to download them again from the website, and thus it can be useful if your network is not so good. Conda is a good tool but may NOT solve all dependency problems all the time. Tips: after your installation, always run the test dataset first to make sure that there is no installation problem. (From https://github.com/linzhi2013/MitoZ/wiki)
Good luck!
from mitoz.
Related Issues (20)
- recur'Segmentation fault (core dumped)'when run mitoAssemble HOT 1
- Megahit sync PE fastq HOT 4
- Vertebrate mitogenome comes out 10k bp, linear, and unannotated HOT 3
- Annotating shorter than 600 bp control region HOT 6
- 你好,我在使用mitoz时遇到了一些问题。我正在使用的脚本是“mitoz all -- outfix text -- fq1 text -- fq2 text -- data_size_for_mt_assembly 3,0-- assembler megahit -- requiring _taxa”。同一脚本有两对样本,一组成功运行了结果,另一对报告了错误。显示的代码是运行创世纪外壳文件运行基因将结果转换为gff3格式Cat:'/ Csd5057. megait. hmmtblout. besthit. sim. fa. genewise/*/*. genewise ': 不存在那个文件或目录 抱歉,注释没有结果!请问原因是什么 HOT 3
- Issue with tRNA annotation HOT 2
- Error in subcommand annoate in the Singularity image MitoZv3.4. HOT 2
- Problem with annotation HOT 1
- 在select_sequences_by_gene_completeness函数中,运行时出现了错误 HOT 4
- mitoz all: error: the following arguments are required: --fq1, --requiring_taxa HOT 1
- overlap is 0 HOT 9
- Issue with Installation HOT 1
- the result assembled mito genome have more than one contigs HOT 4
- Missing tRNA annotation HOT 8
- MitoZ cannot access input files - Singularity on HPC HOT 4
- A typo in the 'help' section HOT 1
- Nanopore reads HOT 4
- summary.txt empty when no CDS genes annotated HOT 4
- Error during annotation
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