-
Notifications
You must be signed in to change notification settings - Fork 2
/
Copy pathenvironment.yml
389 lines (388 loc) · 13 KB
/
environment.yml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
name: metagenomics_practical
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- _libgcc_mutex=0.1=main
- aragorn=1.2.38=h516909a_3
- argon2-cffi=21.3.0=pyhd3eb1b0_0
- argon2-cffi-bindings=21.2.0=py37h7f8727e_0
- attrs=21.4.0=pyhd3eb1b0_0
- backcall=0.2.0=pyhd3eb1b0_0
- barrnap=0.9=hdfd78af_4
- bash_kernel=0.7.2=py_0
- bedtools=2.30.0=hc088bd4_0
- blas=1.0=mkl
- blast=2.9.0=pl526he19e7b1_5
- bleach=4.1.0=pyhd3eb1b0_0
- brotli=1.0.9=he6710b0_2
- bwa=0.7.17=hed695b0_7
- bzip2=1.0.8=h7b6447c_0
- ca-certificates=2022.2.1=h06a4308_0
- cairo=1.14.12=h8948797_3
- certifi=2021.10.8=py37h06a4308_2
- cffi=1.15.0=py37h7f8727e_0
- checkm-genome=1.1.3=py_1
- clustalw=2.1=hc9558a2_5
- curl=7.69.1=hbc83047_0
- cycler=0.11.0=pyhd3eb1b0_0
- dbus=1.13.18=hb2f20db_0
- debugpy=1.5.1=py37h295c915_0
- decorator=5.1.1=pyhd3eb1b0_0
- defusedxml=0.7.1=pyhd3eb1b0_0
- dendropy=4.5.2=pyh3252c3a_0
- entrez-direct=16.2=he881be0_0
- entrypoints=0.3=py37_0
- expat=2.4.4=h295c915_0
- fontconfig=2.13.1=h6c09931_0
- fonttools=4.25.0=pyhd3eb1b0_0
- freetype=2.11.0=h70c0345_0
- fribidi=1.0.10=h7b6447c_0
- giflib=5.2.1=h7b6447c_0
- glib=2.63.1=h5a9c865_0
- graphite2=1.3.14=h23475e2_0
- graphviz=2.40.1=h21bd128_2
- gst-plugins-base=1.14.0=hbbd80ab_1
- gstreamer=1.14.0=hb453b48_1
- harfbuzz=1.8.8=hffaf4a1_0
- hmmer=3.3.2=he1b5a44_0
- htslib=1.9=ha228f0b_7
- icu=58.2=he6710b0_3
- importlib-metadata=4.8.2=py37h06a4308_0
- importlib_metadata=4.8.2=hd3eb1b0_0
- infernal=1.1.3=h516909a_0
- intel-openmp=2021.4.0=h06a4308_3561
- ipykernel=6.9.1=py37h06a4308_0
- ipython=7.31.1=py37h06a4308_0
- ipython_genutils=0.2.0=pyhd3eb1b0_1
- ipywidgets=7.6.5=pyhd3eb1b0_1
- iqtree=2.0.3=h176a8bc_1
- jedi=0.18.1=py37h06a4308_1
- jinja2=3.0.3=pyhd3eb1b0_0
- jpeg=9d=h7f8727e_0
- jsonschema=3.2.0=pyhd3eb1b0_2
- jupyter=1.0.0=py37_7
- jupyter_client=7.1.2=pyhd3eb1b0_0
- jupyter_console=6.4.3=pyhd3eb1b0_0
- jupyter_core=4.9.2=py37h06a4308_0
- jupyterlab_pygments=0.1.2=py_0
- jupyterlab_widgets=1.0.0=pyhd3eb1b0_1
- kiwisolver=1.3.2=py37h295c915_0
- krb5=1.17.1=h173b8e3_0
- lcms2=2.12=h3be6417_0
- ld_impl_linux-64=2.35.1=h7274673_9
- libcurl=7.69.1=h20c2e04_0
- libdb=6.1.26=0
- libdeflate=1.0=h14c3975_1
- libedit=3.1.20181209=hc058e9b_0
- libffi=3.2.1=hf484d3e_1007
- libgcc=7.2.0=h69d50b8_2
- libgcc-ng=9.1.0=hdf63c60_0
- libgd=2.3.3=h695aa2c_0
- libgfortran-ng=7.3.0=hdf63c60_0
- libidn11=1.33=h7b6447c_0
- libpng=1.6.37=hbc83047_0
- libsodium=1.0.18=h7b6447c_0
- libssh2=1.9.0=h1ba5d50_1
- libstdcxx-ng=9.1.0=hdf63c60_0
- libtiff=4.2.0=h85742a9_0
- libuuid=1.0.3=h7f8727e_2
- libwebp=1.2.2=h55f646e_0
- libwebp-base=1.2.2=h7f8727e_0
- libxcb=1.14=h7b6447c_0
- libxml2=2.9.10=hb55368b_3
- libxslt=1.1.34=hc22bd24_0
- lz4-c=1.9.3=h295c915_1
- mafft=7.310=he1b5a44_3
- markupsafe=2.0.1=py37h27cfd23_0
- matplotlib-base=3.5.1=py37ha18d171_1
- matplotlib-inline=0.1.2=pyhd3eb1b0_2
- metabat2=2.15=h137b6e9_0
- minced=0.4.2=hdfd78af_1
- mistune=0.8.4=py37h14c3975_1001
- mkl=2021.4.0=h06a4308_640
- mkl-service=2.4.0=py37h7f8727e_0
- mkl_fft=1.3.1=py37hd3c417c_0
- mkl_random=1.2.2=py37h51133e4_0
- munkres=1.0.7=py_1
- nbclient=0.5.11=pyhd3eb1b0_0
- nbconvert=6.3.0=py37h06a4308_0
- nbformat=5.1.3=pyhd3eb1b0_0
- ncurses=6.1=he6710b0_1
- nest-asyncio=1.5.1=pyhd3eb1b0_0
- notebook=6.4.8=py37h06a4308_0
- numpy=1.21.2=py37h20f2e39_0
- numpy-base=1.21.2=py37h79a1101_0
- openjdk=8.0.152=h7b6447c_3
- openssl=1.1.1n=h7f8727e_0
- packaging=21.3=pyhd3eb1b0_0
- paml=4.9=h516909a_5
- pandocfilters=1.5.0=pyhd3eb1b0_0
- pango=1.42.4=h049681c_0
- parallel=20160622=1
- parso=0.8.3=pyhd3eb1b0_0
- pcre=8.45=h295c915_0
- perl=5.26.2=h14c3975_0
- perl-aceperl=1.92=pl526_2
- perl-algorithm-diff=1.1903=pl526_2
- perl-algorithm-munkres=0.08=pl526_1
- perl-apache-test=1.40=pl526_1
- perl-app-cpanminus=1.7044=pl526_1
- perl-appconfig=1.71=pl526_1
- perl-archive-tar=2.32=pl526_0
- perl-array-compare=3.0.1=pl526_1
- perl-autoloader=5.74=pl526_2
- perl-base=2.23=pl526_1
- perl-bio-asn1-entrezgene=1.73=pl5262hdfd78af_2
- perl-bio-coordinate=1.007001=pl5262hdfd78af_2
- perl-bio-featureio=1.6.905=pl5262hdfd78af_3
- perl-bio-phylo=0.58=pl5262hdfd78af_3
- perl-bio-samtools=1.43=pl526h1341992_1
- perl-bio-tools-phylo-paml=1.7.3=pl5262hdfd78af_2
- perl-bio-tools-run-alignment-clustalw=1.7.4=pl5262hdfd78af_2
- perl-bio-tools-run-alignment-tcoffee=1.7.4=pl5262hdfd78af_3
- perl-bioperl=1.7.2=pl526_11
- perl-bioperl-core=1.007002=pl5262hdfd78af_3
- perl-bioperl-run=1.007002=pl5262hdfd78af_5
- perl-business-isbn=3.004=pl526_0
- perl-business-isbn-data=20140910.003=pl526_0
- perl-cache-cache=1.08=pl526_0
- perl-capture-tiny=0.48=pl526_0
- perl-carp=1.38=pl526_3
- perl-cgi=4.44=pl526h14c3975_1
- perl-class-data-inheritable=0.08=pl526_1
- perl-class-inspector=1.34=pl526_0
- perl-class-load=0.25=pl526_0
- perl-class-load-xs=0.10=pl526h6bb024c_2
- perl-class-method-modifiers=2.12=pl526_0
- perl-clone=0.42=pl526h516909a_0
- perl-common-sense=3.74=pl526_2
- perl-compress-raw-bzip2=2.087=pl526he1b5a44_0
- perl-compress-raw-zlib=2.087=pl526hc9558a2_0
- perl-constant=1.33=pl526_1
- perl-convert-binary-c=0.78=pl526h6bb024c_3
- perl-convert-binhex=1.125=pl526_1
- perl-crypt-rc4=2.02=pl526_1
- perl-data-dumper=2.173=pl526_0
- perl-data-optlist=0.110=pl526_2
- perl-data-stag=0.14=pl526_1
- perl-date-format=2.30=pl526_2
- perl-db-file=1.852=pl526h14c3975_0
- perl-dbd-sqlite=1.64=pl526h516909a_0
- perl-dbi=1.642=pl526_0
- perl-devel-globaldestruction=0.14=pl526_0
- perl-devel-overloadinfo=0.005=pl526_0
- perl-devel-stacktrace=2.04=pl526_0
- perl-digest-hmac=1.03=pl526_3
- perl-digest-md5=2.55=pl526_0
- perl-digest-perl-md5=1.9=pl526_1
- perl-digest-sha1=2.13=pl526h6bb024c_1
- perl-dist-checkconflicts=0.11=pl526_2
- perl-dynaloader=1.25=pl526_1
- perl-email-date-format=1.005=pl526_2
- perl-encode=2.88=pl526_1
- perl-encode-locale=1.05=pl526_6
- perl-error=0.17027=pl526_1
- perl-eval-closure=0.14=pl526h6bb024c_4
- perl-exception-class=1.44=pl526_0
- perl-exporter=5.72=pl526_1
- perl-exporter-tiny=1.002001=pl526_0
- perl-extutils-makemaker=7.36=pl526_1
- perl-file-listing=6.04=pl526_1
- perl-file-path=2.16=pl526_0
- perl-file-slurp-tiny=0.004=pl526_1
- perl-file-sort=1.01=pl526_2
- perl-file-temp=0.2304=pl526_2
- perl-file-which=1.23=pl526_0
- perl-font-afm=1.20=pl526_2
- perl-font-ttf=1.06=pl526_0
- perl-gd=2.68=pl526he941832_0
- perl-getopt-long=2.50=pl526_1
- perl-graph=0.9704=pl526_1
- perl-graphviz=2.24=pl526h734ff71_0
- perl-html-element-extended=1.18=pl526_1
- perl-html-entities-numbered=0.04=pl526_1
- perl-html-formatter=2.16=pl526_0
- perl-html-parser=3.72=pl526h6bb024c_5
- perl-html-tableextract=2.13=pl526_2
- perl-html-tagset=3.20=pl526_3
- perl-html-tidy=1.60=pl526_0
- perl-html-tree=5.07=pl526_1
- perl-html-treebuilder-xpath=0.14=pl526_1
- perl-http-cookies=6.04=pl526_0
- perl-http-daemon=6.01=pl526_1
- perl-http-date=6.02=pl526_3
- perl-http-message=6.18=pl526_0
- perl-http-negotiate=6.01=pl526_3
- perl-image-info=1.38=pl526_1
- perl-image-size=3.300=pl526_2
- perl-io-compress=2.087=pl526he1b5a44_0
- perl-io-html=1.001=pl526_2
- perl-io-sessiondata=1.03=pl526_1
- perl-io-socket-ssl=2.066=pl526_0
- perl-io-string=1.08=pl526_3
- perl-io-stringy=2.111=pl526_1
- perl-io-tty=1.12=pl526_1
- perl-io-zlib=1.10=pl526_2
- perl-ipc-run=20180523.0=pl526_0
- perl-ipc-sharelite=0.17=pl526h6bb024c_1
- perl-jcode=2.07=pl526_2
- perl-json=4.02=pl526_0
- perl-json-xs=2.34=pl526h6bb024c_3
- perl-lib=0.63=pl526_1
- perl-libwww-perl=6.39=pl526_0
- perl-libxml-perl=0.08=pl526_2
- perl-list-moreutils=0.428=pl526_1
- perl-list-moreutils-xs=0.428=pl526_0
- perl-lwp-mediatypes=6.04=pl526_0
- perl-lwp-protocol-https=6.07=pl526_4
- perl-lwp-simple=6.15=pl526h470a237_4
- perl-mailtools=2.21=pl526_0
- perl-math-cdf=0.1=pl526h14c3975_5
- perl-math-derivative=1.01=pl526_0
- perl-math-random=0.72=pl526h14c3975_2
- perl-math-spline=0.02=pl526_2
- perl-mime-base64=3.15=pl526_1
- perl-mime-lite=3.030=pl526_1
- perl-mime-tools=5.508=pl526_1
- perl-mime-types=2.17=pl526_0
- perl-mldbm=2.05=pl526_1
- perl-module-implementation=0.09=pl526_2
- perl-module-runtime=0.016=pl526_1
- perl-module-runtime-conflicts=0.003=pl526_0
- perl-moo=2.003004=pl526_0
- perl-moose=2.2011=pl526hf484d3e_1
- perl-mozilla-ca=20180117=pl526_1
- perl-mro-compat=0.13=pl526_0
- perl-net-http=6.19=pl526_0
- perl-net-ssleay=1.88=pl526h90d6eec_0
- perl-ntlm=1.09=pl526_4
- perl-ole-storage_lite=0.19=pl526_3
- perl-package-deprecationmanager=0.17=pl526_0
- perl-package-stash=0.38=pl526hf484d3e_1
- perl-package-stash-xs=0.28=pl526hf484d3e_1
- perl-params-util=1.07=pl526h6bb024c_4
- perl-parent=0.236=pl526_1
- perl-parse-recdescent=1.967015=pl526_0
- perl-pathtools=3.75=pl526h14c3975_1
- perl-pdf-api2=2.035=pl526_0
- perl-pod-escapes=1.07=pl526_1
- perl-pod-usage=1.69=pl526_1
- perl-postscript=0.06=pl526_2
- perl-role-tiny=2.000008=pl526_0
- perl-scalar-list-utils=1.52=pl526h516909a_0
- perl-set-scalar=1.29=pl526_2
- perl-soap-lite=1.19=pl526_1
- perl-socket=2.027=pl526_1
- perl-sort-naturally=1.03=pl526_2
- perl-spreadsheet-parseexcel=0.65=pl526_2
- perl-spreadsheet-writeexcel=2.40=pl526_2
- perl-statistics-descriptive=3.0702=pl526_0
- perl-storable=3.15=pl526h14c3975_0
- perl-sub-exporter=0.987=pl526_2
- perl-sub-exporter-progressive=0.001013=pl526_0
- perl-sub-identify=0.14=pl526h14c3975_0
- perl-sub-install=0.928=pl526_2
- perl-sub-name=0.21=pl526_1
- perl-sub-quote=2.006003=pl526_1
- perl-sub-uplevel=0.2800=pl526h14c3975_2
- perl-svg=2.84=pl526_0
- perl-svg-graph=0.02=pl526_3
- perl-task-weaken=1.06=pl526_0
- perl-template-toolkit=2.26=pl526_1
- perl-test=1.26=pl526_1
- perl-test-deep=1.128=pl526_1
- perl-test-differences=0.67=pl526_0
- perl-test-exception=0.43=pl526_2
- perl-test-harness=3.42=pl526_0
- perl-test-leaktrace=0.16=pl526h14c3975_2
- perl-test-most=0.35=pl526_0
- perl-test-requiresinternet=0.05=pl526_0
- perl-test-warn=0.36=pl526_1
- perl-text-diff=1.45=pl526_0
- perl-threaded=5.32.1=hdfd78af_1
- perl-tie-ixhash=1.23=pl526_2
- perl-time-hires=1.9760=pl526h14c3975_1
- perl-time-local=1.28=pl526_1
- perl-timedate=2.30=pl526_1
- perl-tree-dag_node=1.31=pl526_0
- perl-try-tiny=0.30=pl526_1
- perl-type-tiny=1.004004=pl526_0
- perl-types-serialiser=1.0=pl526_2
- perl-unicode-map=0.112=pl526h6bb024c_3
- perl-uri=1.76=pl526_0
- perl-www-robotrules=6.02=pl526_3
- perl-xml-dom=1.46=pl526_0
- perl-xml-dom-xpath=0.14=pl526_1
- perl-xml-filter-buffertext=1.01=pl526_2
- perl-xml-libxml=2.0132=pl526h7ec2d77_1
- perl-xml-libxslt=1.94=pl526_1
- perl-xml-namespacesupport=1.12=pl526_0
- perl-xml-parser=2.44=4
- perl-xml-regexp=0.04=pl526_2
- perl-xml-sax=1.02=pl526_0
- perl-xml-sax-base=1.09=pl526_0
- perl-xml-sax-expat=0.51=pl526_3
- perl-xml-sax-writer=0.57=pl526_0
- perl-xml-simple=2.25=pl526_1
- perl-xml-twig=3.52=pl526_2
- perl-xml-writer=0.625=pl526_2
- perl-xml-xpath=1.44=pl526_0
- perl-xml-xpathengine=0.14=pl526_2
- perl-xsloader=0.24=pl526_0
- perl-yaml=1.29=pl526_0
- pexpect=4.8.0=pyhd3eb1b0_3
- pickleshare=0.7.5=pyhd3eb1b0_1003
- pillow=9.0.1=py37h22f2fdc_0
- pip=21.2.2=py37h06a4308_0
- pixman=0.40.0=h7f8727e_1
- pplacer=1.1.alpha19=h9ee0642_2
- prodigal=2.6.3=h516909a_2
- prokka=1.13=3
- prometheus_client=0.13.1=pyhd3eb1b0_0
- prompt-toolkit=3.0.20=pyhd3eb1b0_0
- prompt_toolkit=3.0.20=hd3eb1b0_0
- ptyprocess=0.7.0=pyhd3eb1b0_2
- pycparser=2.21=pyhd3eb1b0_0
- pygments=2.11.2=pyhd3eb1b0_0
- pyparsing=3.0.4=pyhd3eb1b0_0
- pyqt=5.9.2=py37h05f1152_2
- pyrsistent=0.18.0=py37heee7806_0
- pysam=0.15.3=py37hda2845c_1
- python=3.7.6=h0371630_2
- python-dateutil=2.8.2=pyhd3eb1b0_0
- python_abi=3.7=2_cp37m
- pyzmq=22.3.0=py37h295c915_2
- qt=5.9.7=h5867ecd_1
- qtconsole=5.2.2=pyhd3eb1b0_0
- qtpy=1.11.2=pyhd3eb1b0_0
- readline=7.0=h7b6447c_5
- samtools=1.9=h10a08f8_12
- scipy=1.6.2=py37had2a1c9_1
- send2trash=1.8.0=pyhd3eb1b0_1
- setuptools=58.0.4=py37h06a4308_0
- sip=4.19.8=py37hf484d3e_0
- six=1.16.0=pyhd3eb1b0_1
- sqlite=3.31.1=h7b6447c_0
- t_coffee=11.0.8=py37hea885bf_8
- tbl2asn=25.7=h9ee0642_1
- terminado=0.13.1=py37h06a4308_0
- testpath=0.5.0=pyhd3eb1b0_0
- tidyp=1.04=h516909a_2
- tk=8.6.11=h1ccaba5_0
- tornado=6.1=py37h27cfd23_0
- traitlets=5.1.1=pyhd3eb1b0_0
- typing-extensions=3.10.0.2=hd3eb1b0_0
- typing_extensions=3.10.0.2=pyh06a4308_0
- wcwidth=0.2.5=pyhd3eb1b0_0
- webencodings=0.5.1=py37_1
- wget=1.20.1=h20c2e04_0
- wheel=0.37.1=pyhd3eb1b0_0
- widgetsnbextension=3.5.2=py37h06a4308_0
- xz=5.2.5=h7b6447c_0
- zeromq=4.3.4=h2531618_0
- zipp=3.7.0=pyhd3eb1b0_0
- zlib=1.2.11=h7f8727e_4
- zstd=1.4.9=haebb681_0
prefix: /opt/miniconda3/envs/metagenomics_practical