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liuyunshenm木蟲 (正式寫手)
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[求助]
phono3py計(jì)算晶格熱導(dǎo)率提取數(shù)據(jù)phonon lifetime與聲子頻率的關(guān)系數(shù)據(jù)求助。 已有2人參與
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大神，‘ 您好！ 我用的系統(tǒng)是Ubuntu 18.04; 安裝了phono3py 1.16.0版本（最新版本），VASP+phono3py計(jì)算熱導(dǎo)率的 系統(tǒng)安裝在WMware虛擬機(jī)中的。 我在用phono3py-kdeplot提取數(shù)據(jù)畫圖時(shí)，總是報(bào)錯(cuò)，報(bào)錯(cuò)提示如下： （另外，Ubuntu 14.04+phono3py 1.12.3, Ubuntu 16.04+phono3py 1.16.0 也基本是如下報(bào)錯(cuò)情況） 請求大神能幫我從根本上解決問題。最好是能從文件中直接提取數(shù)據(jù)，我另外畫圖。 /home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/axes/_base.py:3215: MatplotlibDeprecationWarning: The `xmin` argument was deprecated in Matplotlib 3.0 and will be removed in 3.2. Use `left` instead. alternative='`left`', obj_type='argument') /home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/axes/_base.py:3221: MatplotlibDeprecationWarning: The `xmax` argument was deprecated in Matplotlib 3.0 and will be removed in 3.2. Use `right` instead. alternative='`right`', obj_type='argument') /home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/axes/_base.py:3604: MatplotlibDeprecationWarning: The `ymin` argument was deprecated in Matplotlib 3.0 and will be removed in 3.2. Use `bottom` instead. alternative='`bottom`', obj_type='argument') /home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/axes/_base.py:3610: MatplotlibDeprecationWarning: The `ymax` argument was deprecated in Matplotlib 3.0 and will be removed in 3.2. Use `top` instead. alternative='`top`', obj_type='argument') Traceback (most recent call last): File "/home/pkl/anaconda3/bin/phono3py-kdeplot", line 4, in <module> __import__('pkg_resources').run_script('phono3py==1.16.0.post1', 'phono3py-kdeplot') File "/home/pkl/anaconda3/lib/python3.6/site-packages/pkg_resources/__init__.py", line 666, in run_script self.require(requires)[0].run_script(script_name, ns) File "/home/pkl/anaconda3/lib/python3.6/site-packages/pkg_resources/__init__.py", line 1446, in run_script exec(code, namespace, namespace) File "/home/pkl/anaconda3/lib/python3.6/site-packages/phono3py-1.16.0.post1-py3.6-linux-x86_64.egg-info/scripts/phono3py-kdeplot", line 294, in <module> main(get_options()) File "/home/pkl/anaconda3/lib/python3.6/site-packages/phono3py-1.16.0.post1-py3.6-linux-x86_64.egg-info/scripts/phono3py-kdeplot", line 290, in main fig.savefig("lifetime.png"  File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/figure.py", line 2094, in savefig self.canvas.print_figure(fname, **kwargs) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/backend_bases.py", line 2075, in print_figure **kwargs) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/backends/backend_agg.py", line 510, in print_png FigureCanvasAgg.draw(self) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/backends/backend_agg.py", line 402, in draw self.figure.draw(self.renderer) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/artist.py", line 50, in draw_wrapper return draw(artist, renderer, *args, **kwargs) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/figure.py", line 1649, in draw renderer, self, artists, self.suppressComposite) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/image.py", line 138, in _draw_list_compositing_images a.draw(renderer) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/artist.py", line 50, in draw_wrapper return draw(artist, renderer, *args, **kwargs) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/axes/_base.py", line 2628, in draw mimage._draw_list_compositing_images(renderer, self, artists) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/image.py", line 138, in _draw_list_compositing_images a.draw(renderer) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/artist.py", line 50, in draw_wrapper return draw(artist, renderer, *args, **kwargs) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/axis.py", line 1187, in draw renderer) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/axis.py", line 1125, in _get_tick_bboxes extent = tick.label1.get_window_extent(renderer) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/text.py", line 930, in get_window_extent bbox, info, descent = self._get_layout(self._renderer) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/text.py", line 313, in _get_layout ismath=ismath) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/backends/backend_agg.py", line 209, in get_text_width_height_descent s, fontsize, renderer=self) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/texmanager.py", line 464, in get_text_width_height_descent dvifile = self.make_dvi(tex, fontsize) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/texmanager.py", line 328, in make_dvi texfile], tex) File "/home/pkl/anaconda3/lib/python3.6/site-packages/matplotlib/texmanager.py", line 298, in _run_checked_subprocess stderr=subprocess.STDOUT) File "/home/pkl/anaconda3/lib/python3.6/subprocess.py", line 356, in check_output **kwargs).stdout File "/home/pkl/anaconda3/lib/python3.6/subprocess.py", line 423, in run with Popen(*popenargs, **kwargs) as process: File "/home/pkl/anaconda3/lib/python3.6/subprocess.py", line 729, in __init__ restore_signals, start_new_session) File "/home/pkl/anaconda3/lib/python3.6/subprocess.py", line 1364, in _execute_child raise child_exception_type(errno_num, err_msg, err_filename) FileNotFoundError: [Errno 2] No such file or directory: 'latex': 'latex' |
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liuyunshenm
木蟲 (正式寫手)
- 應(yīng)助: 5 (幼兒園)
- 金幣: 1720.2
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5樓2019-04-01 14:26:28
【答案】應(yīng)助回帖
感謝參與，應(yīng)助指數(shù) +1
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根據(jù)最后一句，不知是不是坐標(biāo)的符號latex不能識別？如果有坐標(biāo)的話，去掉看可否？ 自己導(dǎo)出數(shù)據(jù)的話，你需要從一系列的h5py文件中提取數(shù)據(jù)的，需要自己寫一個(gè)簡單的程序，比如python。你可以從一個(gè)h5py文件中讀取數(shù)據(jù)開始，可以從Togo的網(wǎng)站看他的例子。然后可以根據(jù)他的例子寫一個(gè)簡單的python程序讀取所有的 kappa-mxxxxx.hdf5 文件中的所有mode的gamma |
2樓2019-04-01 01:08:15
3樓2019-04-01 01:14:17
liuyunshenm
木蟲 (正式寫手)
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4樓2019-04-01 14:25:30
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