QIIME1.9.1:summarize_taxa_through_plots.py画图失败

QIIME的summarize_taxa_through_plots.py在使用最新版matplotlib时因参数变动导致无法绘制图表,错误源于axisbg属性被替换为facecolor。解决办法是回退到matplotlib 1.x版本。
QIIME中的画图命令summarize_taxa_through_plots.py需要调用matplotlib,而matplotlib版本在进化上参数名有重大变化,导致最新版的matplotlib不能出图,报错如下:
/usr/local/lib/python2.7/dist-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
  from ._conv import register_converters as _register_converters
/usr/local/lib/python2.7/dist-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
  from ._conv import register_converters as _register_converters
Traceback (most recent call last):
  File "/usr/local/bin/summarize_taxa_through_plots.py", line 143, in <module>
    main()
  File "/usr/local/bin/summarize_taxa_through_plots.py", line 140, in main
    status_update_callback=status_update_callback)
  File "/usr/local/lib/python2.7/dist-packages/qiime/workflow/downstream.py", line 711, in run_summarize_taxa_through_plots
    close_logger_on_success=close_logger_on_success)
  File "/usr/local/lib/python2.7/dist-packages/qiime/workflow/util.py", line 122, in call_commands_serially
    raise WorkflowError(msg)
qiime.workflow.util.WorkflowError:
*** ERROR RAISED DURING STEP: Plot Taxonomy Summary
Command run was:
 plot_taxa_summary.py -i otu_table_silva_97_summary/otu_table_silva_97_L2.txt,otu_table_silva_97_summary/otu_table_silva_97_L3.txt,otu_table_silva_97_summary/otu_table_silva_97_L4.txt,otu_table_silva_97_summary/otu_table_silva_97_L5.txt,otu_table_silva_97_summary/otu_table_silva_97_L6.txt -o otu_table_silva_97_summary/taxa_summary_plots/
Command returned exit status: 1
Stdout:
Stderr
/usr/local/lib/python2.7/dist-packages/h5py/__init__.py:36: FutureWarning: Conversion of the second argument of issubdtype from `float` to `np.floating` is deprecated. In future, it will be treated as `np.float64 == np.dtype(float).type`.
  from ._conv import register_converters as _register_converters
Traceback (most recent call last):
  File "/usr/local/bin/plot_taxa_summary.py", line 278, in <module>
    main()
  File "/usr/local/bin/
正在处理: XC === 错误发生在文件 === 文件路径: E:/microbiome_sequencing/qiime2/16S_1_1/7.asv_diff_stat/lefse/phase_SiteName/lefse_output/run_lefse/XC.txt 文件前几行内容: [1] "d__Bacteria.p__Acidobacteriota.c__Blastocatellia.o__Pyrinomonadales.f__Pyrinomonadaceae.g__RB41\t4.242926247\tXCC\t3.778692256\t0.00447164" [2] "d__Bacteria.p__Acidobacteriota.c__Acidobacteriae.o__Bryobacterales.f__Bryobacteraceae.g__Paludibaculum\t2.45068362\tXCC\t2.216394151\t0.028979214" [3] "d__Bacteria.p__Chloroflexota.c__Chloroflexia.o__Chloroflexales.f__Herpetosiphonaceae.g__Herpetosiphon\t3.276896316\tXCB\t2.877428097\t0.012396515" [4] "d__Bacteria.p__Verrucomicrobiota.c__Verrucomicrobiia.o__Pedosphaerales.f__Pedosphaeraceae.g__ADurb_Bin063_1\t2.629844111\tXCA\t2.3465059\t0.025279088" [5] "d__Bacteria.p__Actinomycetota.c__Actinobacteria.o__Micrococcales.f__Microbacteriaceae.g__Agromyces\t3.412054218\tXCA\t2.745730095\t0.032386941" [6] "d__Bacteria.p__Bacteroidota.c__Bacteroidia.o__Chitinophagales.f__Chitinophagaceae.g__Aurantisolimonas\t2.563915597\tXCC\t2.367723883\t0.022621358" [7] "d__Bacteria.p__Pseudomonadota.c__Alphaproteobacteria.o__Hyphomicrobiales.f__Devosiaceae.g__Devosia\t3.311340141\tXCB\t3.04269901\t0.010626074" [8] "d__Bacteria.p__Actinomycetota.c__Actinobacteria.o__Micrococcales.f__Promicromonosporaceae.g__Promicromonospora\t2.623683802\tXCB\t2.400897044\t0.022621358" [9] "d__Bacteria.p__Bacillota.c__Bacilli.o__Paenibacillales.f__Paenibacillaceae.g__Ammoniphilus\t2.441343594\tXCA\t2.255423495\t0.008037507" [10] "d__Bacteria.p__Pseudomonadota.c__Alphaproteobacteria.o__Tistrellales.f__Geminicoccaceae.g__Candidatus_Alysiosphaera\t2.380645753\tXCA\t2.353792414\t0.015758431" 警告信息: 1: In plot_lda_bars(file) : 分组数量超过12,颜色可能重复,请手动指定颜色 2: In value[[3L]](cond) : LY 处理失败: 找不到对象&#39;output_dir&#39; 3: In plot_lda_bars(file) : 分组数量超过12,颜色可能重复,请手动指定颜色 4: In value[[3L]](cond) : NY 处理失败: 找不到对象&#39;output_dir&#39; 5: In plot_lda_bars(file) : 分组数量超过12,颜色可能重复,请手动指定颜色 6: In value[[3L]](cond) : XC 处理失败: 找不到对象&#39;output_dir&#39; 7: In readLines(file) : 读&#39;E:/microbiome_sequencing/qiime2/16S_1_1/7.asv_diff_stat/lefse/phase_SiteName/lefse_output/run_lefse/XC.txt&#39;时最后一行未遂
07-05
评论
添加红包

请填写红包祝福语或标题

红包个数最小为10个

红包金额最低5元

当前余额3.43前往充值 >
需支付:10.00
成就一亿技术人!
领取后你会自动成为博主和红包主的粉丝 规则
hope_wisdom
发出的红包
实付
使用余额支付
点击重新获取
扫码支付
钱包余额 0

抵扣说明:

1.余额是钱包充值的虚拟货币,按照1:1的比例进行支付金额的抵扣。
2.余额无法直接购买下载,可以购买VIP、付费专栏及课程。

余额充值