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YuboZhangPKU / ERICA

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训练数据 #7

Open pengyan19 opened 3 months ago

pengyan19 commented 3 months ago

你好，我想问一下假如想用自己的数据训练模型，里面的-l参数的数据是怎么制作的呢？

YuboZhangPKU commented 3 months ago

您好，感谢您的使用。Label文件是模型训练的目标，反映类群之间的演化关系。在当前的训练过程中，研究使用了ms等模拟软件产生数据集，模拟结果中包括序列以及与序列对应的谱系树。为了对谱系树进行编码，使用拓扑加权方法（可参考Twisst软件）计算了每种可能拓扑的相对比例，并以此作为神经网络训练的标签。具体数据产生过程可参考ScriptsForModelEvaluation/0DataSimulation.sh脚本。

pengyan19 commented 3 months ago

你好，我今天用这个软件画图的时候，出现版本的问题，请问这个怎么解决？ Traceback (most recent call last): File "ERICAVisualization.py", line 21, in from plotnine import * File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/init.py", line 1, in from .qplot import qplot # noqa: F401 File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/qplot.py", line 9, in from .ggplot import ggplot File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/ggplot.py", line 18, in from .facets import facet_null File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/facets/init.py", line 1, in from .facet_grid import facet_grid File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/facets/facet_grid.py", line 6, in from .facet import facet, layout_null, combine_vars, add_missing_facets File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/facets/facet.py", line 11, in from ..scales.scales import Scales File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/scales/init.py", line 83, in from .limits import xlim, ylim, lims, expand_limits File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/scales/limits.py", line 8, in from ..geoms import geom_blank File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/geoms/init.py", line 24, in from .geom_label import geom_label File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/geoms/geom_label.py", line 4, in from .geom_text import geom_text File "/public/home/pengyan/anaconda3/envs/ERICA/lib/python3.6/site-packages/plotnine/geoms/geom_text.py", line 6, in from adjustText import adjust_text File "/public/home/pengyan/.local/lib/python3.6/site-packages/adjustText/init.py", line 1 from future import division, annotations ^ SyntaxError: future feature annotations is not defined

YuboZhangPKU commented 3 months ago

您好，这个报错可能是由于安装的adjustText包与python 3.6环境不兼容造成的。脚本中未调用adjustText包，因此应该可以不安装该包，或者安装改包适配python 3.6环境的版本。

pengyan19 commented 3 months ago

嗯嗯，好的，谢谢

---原始邮件--- 发件人: @.> 发送时间: 2024年6月16日(周日) 下午4:25 收件人: @.>; 抄送: @.**@.>; 主题: Re: [YuboZhangPKU/ERICA] 训练数据 (Issue #7)

您好，这个报错可能是由于安装的adjustText包与python 3.6环境不兼容造成的。脚本中未调用adjustText包，因此应该可以不安装该包，或者安装改包适配python 3.6环境的版本。

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