-
Notifications
You must be signed in to change notification settings - Fork 0
/
assembly_prokka.yml
407 lines (406 loc) · 13.6 KB
/
assembly_prokka.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
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
name: assembly_v2
channels:
- conda-forge
- bioconda
- defaults
- anaconda
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=1_gnu
- aragorn=1.2.38=h779adbc_4
- atk-1.0=2.36.0=h3371d22_4
- barrnap=0.9=hdfd78af_4
- bedtools=2.30.0=h7d7f7ad_2
- blast=2.12.0=pl5262h3289130_0
- bowtie2=2.4.2=py37h8270d21_1
- brotlipy=0.7.0=py37h5e8e339_1003
- bzip2=1.0.8=h7f98852_4
- c-ares=1.18.1=h7f98852_0
- ca-certificates=2021.10.8=ha878542_0
- cairo=1.16.0=ha00ac49_1009
- certifi=2021.10.8=py37h89c1867_1
- cffi=1.15.0=py37h036bc23_0
- chardet=4.0.0=py37h89c1867_2
- circos=0.69.8=hdfd78af_1
- click=8.0.3=py37h89c1867_1
- clustalw=2.1=h7d875b9_6
- colorama=0.4.4=pyh9f0ad1d_0
- coloredlogs=15.0.1=py37h89c1867_2
- colormath=3.0.0=py_2
- commonmark=0.9.1=py_0
- cryptography=35.0.0=py37hf1a17b8_2
- curl=7.80.0=h2574ce0_0
- cycler=0.11.0=pyhd8ed1ab_0
- entrez-direct=16.2=he881be0_0
- expat=2.4.1=h9c3ff4c_0
- fastqc=0.11.9=hdfd78af_1
- font-ttf-dejavu-sans-mono=2.37=hab24e00_0
- font-ttf-inconsolata=3.000=h77eed37_0
- font-ttf-source-code-pro=2.038=h77eed37_0
- font-ttf-ubuntu=0.83=hab24e00_0
- fontconfig=2.13.1=hba837de_1005
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- freebayes=1.3.2=py37h26878c9_2
- freetype=2.10.4=h0708190_1
- fribidi=1.0.10=h36c2ea0_0
- future=0.18.2=py37h89c1867_4
- gdk-pixbuf=2.42.6=h04a7f16_0
- gettext=0.19.8.1=h73d1719_1008
- giflib=5.2.1=h36c2ea0_2
- glimmerhmm=3.0.4=pl526hf484d3e_3
- graphite2=1.3.13=h58526e2_1001
- graphviz=2.49.3=h85b4f2f_0
- gtk2=2.24.33=h539f30e_1
- gts=0.7.6=h64030ff_2
- harfbuzz=3.1.1=hb4a5f5f_1
- hmmer=3.3.2=h1b792b2_1
- htslib=1.14=h9093b5e_0
- humanfriendly=10.0=py37h89c1867_1
- icu=69.1=h9c3ff4c_0
- idna=2.10=pyh9f0ad1d_0
- importlib-metadata=4.8.2=py37h89c1867_0
- infernal=1.1.4=h779adbc_0
- jbig=2.1=h7f98852_2003
- jinja2=3.0.3=pyhd8ed1ab_0
- joblib=1.1.0=pyhd8ed1ab_0
- jpeg=9d=h36c2ea0_0
- k8=0.2.5=h9a82719_1
- kiwisolver=1.3.2=py37h2527ec5_1
- krb5=1.19.2=hcc1bbae_3
- lcms2=2.12=hddcbb42_0
- ld_impl_linux-64=2.36.1=hea4e1c9_2
- lerc=2.2.1=h9c3ff4c_0
- libblas=3.9.0=12_linux64_openblas
- libcblas=3.9.0=12_linux64_openblas
- libcurl=7.80.0=h2574ce0_0
- libdb=6.2.32=h9c3ff4c_0
- libdeflate=1.7=h7f98852_5
- libedit=3.1.20191231=he28a2e2_2
- libev=4.33=h516909a_1
- libffi=3.4.2=h7f98852_5
- libgcc-ng=11.2.0=h1d223b6_11
- libgd=2.3.3=h3cfcdeb_1
- libgfortran-ng=11.2.0=h69a702a_11
- libgfortran5=11.2.0=h5c6108e_11
- libglib=2.70.0=h174f98d_1
- libgomp=11.2.0=h1d223b6_11
- libiconv=1.16=h516909a_0
- libidn11=1.34=h1cef754_0
- liblapack=3.9.0=12_linux64_openblas
- libnghttp2=1.43.0=h812cca2_1
- libnsl=2.0.0=h7f98852_0
- libopenblas=0.3.18=pthreads_h8fe5266_0
- libpng=1.6.37=h21135ba_2
- librsvg=2.52.3=hc3c00ef_0
- libssh2=1.10.0=ha56f1ee_2
- libstdcxx-ng=11.2.0=he4da1e4_11
- libtiff=4.3.0=hf544144_1
- libtool=2.4.6=h9c3ff4c_1008
- libuuid=2.32.1=h7f98852_1000
- libwebp=1.2.1=h3452ae3_0
- libwebp-base=1.2.1=h7f98852_0
- libxcb=1.13=h7f98852_1004
- libxml2=2.9.12=h885dcf4_1
- libxslt=1.1.33=h0ef7038_3
- libzlib=1.2.11=h36c2ea0_1013
- llvm-meta=7.0.0=0
- lz4-c=1.9.3=h9c3ff4c_1
- lzstring=1.0.4=py_1001
- markdown=3.3.4=pyhd8ed1ab_0
- markupsafe=2.0.1=py37h5e8e339_1
- matplotlib-base=3.4.3=py37h1058ff1_1
- minced=0.4.2=hdfd78af_1
- miniasm=0.3_r179=h5bf99c6_2
- minimap2=2.22=h5bf99c6_0
- multiqc=1.11=pyhdfd78af_0
- ncurses=6.2=h58526e2_4
- networkx=2.6.3=pyhd8ed1ab_1
- numpy=1.21.4=py37h31617e3_0
- olefile=0.46=pyh9f0ad1d_1
- openjdk=11.0.1=h516909a_1016
- openjpeg=2.4.0=hb52868f_1
- openmp=7.0.0=h2d50403_0
- openssl=1.1.1l=h7f98852_0
- paml=4.9=h779adbc_6
- pandas=1.3.4=py37he8f5f7f_1
- pango=1.48.10=h54213e6_2
- parallel=20211022=ha770c72_0
- pcre=8.45=h9c3ff4c_0
- perl=5.26.2=h36c2ea0_1008
- 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-config-general=2.63=pl526_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=1.855=pl526h516909a_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-bezier=0.01=pl526_1
- perl-math-cdf=0.1=pl526h14c3975_5
- perl-math-derivative=1.01=pl526_0
- perl-math-random=0.72=pl526h14c3975_2
- perl-math-round=0.07=pl526_1
- perl-math-spline=0.02=pl526_2
- perl-math-vecstat=0.08=pl526_1
- 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-number-format=1.75=pl526_3
- 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-params-validate=1.29=pl526h14c3975_1
- 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-readonly=2.05=pl526_0
- perl-regexp-common=2017060201=pl526_0
- perl-role-tiny=2.000008=pl526_0
- perl-scalar-list-utils=1.52=pl526h516909a_0
- perl-set-intspan=1.19=pl526_1
- 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-basic=1.6611=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-text-format=0.59=pl526_2
- 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_01=pl5262hc3e0081_1002
- 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
- pillow=8.4.0=py37h0f21c89_0
- pilon=1.24=hdfd78af_0
- pip=21.3.1=pyhd8ed1ab_0
- pixman=0.40.0=h36c2ea0_0
- prodigal=2.6.3=h779adbc_3
- prokka=1.14.6=pl5262hdfd78af_1
- pthread-stubs=0.4=h36c2ea0_1001
- pycparser=2.21=pyhd8ed1ab_0
- pygments=2.10.0=pyhd8ed1ab_0
- pyopenssl=21.0.0=pyhd8ed1ab_0
- pyparsing=3.0.5=pyhd8ed1ab_0
- pysocks=1.7.1=py37h89c1867_4
- python=3.7.12=hb7a2778_100_cpython
- python-dateutil=2.8.2=pyhd8ed1ab_0
- python_abi=3.7=2_cp37m
- pytz=2021.3=pyhd8ed1ab_0
- pyyaml=6.0=py37h5e8e339_3
- quast=5.0.2=py37pl5262hfecc14a_5
- racon=1.4.20=h9a82719_1
- readline=8.1=h46c0cb4_0
- requests=2.25.1=pyhd3deb0d_0
- rich=10.13.0=py37h89c1867_0
- samtools=1.14=hb421002_0
- scipy=1.7.2=py37hf2a6cf1_0
- setuptools=58.5.3=py37h89c1867_0
- simplejson=3.17.5=py37h5e8e339_1
- six=1.16.0=pyh6c4a22f_0
- spades=3.14.1=h95f258a_2
- spectra=0.0.11=py_1
- sqlite=3.36.0=h9cd32fc_2
- t_coffee=11.0.8=py37hea885bf_8
- tbb=2021.4.0=h4bd325d_1
- tbl2asn-forever=25.7.2f=h779adbc_1
- tidyp=1.04=h779adbc_3
- tk=8.6.11=h27826a3_1
- tornado=6.1=py37h5e8e339_2
- trimmomatic=0.39=hdfd78af_2
- typing_extensions=3.10.0.2=pyha770c72_0
- unicycler=0.4.8=py37h13b99d1_3
- urllib3=1.26.7=pyhd8ed1ab_0
- wheel=0.37.0=pyhd8ed1ab_1
- xorg-kbproto=1.0.7=h7f98852_1002
- xorg-libice=1.0.10=h7f98852_0
- xorg-libsm=1.2.3=hd9c2040_1000
- xorg-libx11=1.7.2=h7f98852_0
- xorg-libxau=1.0.9=h7f98852_0
- xorg-libxdmcp=1.1.3=h7f98852_0
- xorg-libxext=1.3.4=h7f98852_1
- xorg-libxrender=0.9.10=h7f98852_1003
- xorg-renderproto=0.11.1=h7f98852_1002
- xorg-xextproto=7.3.0=h7f98852_1002
- xorg-xproto=7.0.31=h7f98852_1007
- xz=5.2.5=h516909a_1
- yaml=0.2.5=h516909a_0
- zipp=3.6.0=pyhd8ed1ab_0
- zlib=1.2.11=h36c2ea0_1013
- zstd=1.5.0=ha95c52a_0
prefix: /data/bi/pipelines/miniconda3/envs/assembly_v2