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unixBasics.history.txt
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≈˚ 107 AGAAGCGTGCAGCTGAGAGGCATCCAGAAAAGTATCAGGGTAGTTCTGTTTCAAACTTGCATGTGGAGCC
108 ATGTGGCACAAATACTCATGCCAGCTCATTACAGCATGAGAACAGCAGTTTATTACTCACTAAAGACAGA
109 ATGAATGTAGAAAAGGCTGAATTCTGTAATAAAAGCAAACAGCCTGGCTTAGCAAGGAGCCAACATAACA
110 GATGGGCTGGAAGTAAGGAAACATGTAATGATAGGCGGACTCCCAGCACAGAAAAAAAGGTAGATCTGAA
111 TGCTGATCCCCTGTGTGAGAGAAAAGAATGGAATAAGCAGAAACTGCCATGCTCAGAGAATCCTAGAGAT
GATAACACTAAATAGCAGCATTCAGAAAGTTAATGAGTGGTTTTCCAGAAGTG
113 ATGAACTGTTAGGTTCTGATGACTCACATGATGGGGAGTCTGAATCAAATGCCAAAGTAGCTGATGTATT
114 GGACGTTCTAAATGAGGTAGATGAATATTCTGGTTCTTCAGAGAAAATAGACTTACTGGCCAGTGATCCT
115 CATGAGGCTTTAATATGTAAAAGTGAAAGAGTTCACTCCAAATCAGTAGAGAGTAATATTGAAGACAAAA
116 TATTTGGGAAAACCTATCGGAAGAAGGCAAGCCTCCCCAACTTAAGCCATGTAACTGAAAATCTAATTAT
117 AGGAGCATTTGTTACTGAGCCACAGATAATACAAGAGCGTCCCCTCACAAATAAATTAAAGCGTAAAAGG
118 AGACCTACATCAGGCCTTCATCCTGAGGATTTTATCAAGAAAGCAGATTTGGCAGTTCAAAAGACTCCTG
119 AAATGATAAATCAGGGAACTAACCAAACGGAGCAGAATGGTCAAGTGATGAATATTACTAATAGTGGTCA
120 TGAGAATAAAACAAAAGGTGATTCTATTCAGAATGAGAAAAATCCTAACCCAATAGAATCACTCGAAAAA
121 GAATCTGCTTTCAAAACGAAAGCTGAACCTATAAGCAGCAGTATAAGCAATATGGAACTCGAATTAAATA
122 TCCACAATTCAAAAGCACCTAAAAAGAATAGGCTGAGGAGGAAGTCTTCTACCAGGCATATTCATGCGCT
123 TGAACTAGTAGTCAGTAGAAATCTAAGCCCACCTAATTGTACTGAATTGCAAATTGATAGTTGTTCTAGC
124 AGTGAAGAGATAAAGAAAAAAAAGTACAACCAAATGCCAGTCAGGCACAGCAGAAACCTACAACTCATGG
125 AAGGTAAAGAACCTGCAACTGGAGCCAAGAAGAGTAACAAGCCAAATGAACAGACAAGTAAAAGACATGA
126 CAGCGATACTTTCCCAGAGCTGAAGTTAACAAATGCACCTGGTTCTTTTACTAAGTGTTCAAATACCAGT
127 GAACTTAAAGAATTTGTCAATCCTAGCCTTCCAAGAGAAGAAAAAGAAGAGAAACTAGAAACAGTTAAAG
128 TGTCTAATAATGCTGAAGACCCCAAAGATCTCATGTTAAGTGGAGAAAGGGTTTTGCAAACTGAAAGATC
129 TGTAGAGAGTAGCAGTATTTCATTGGTACCTGGTACTGATTATGGCACTCAGGAAAGTATCTCGTTACTG
130 GAAGTTAGCACTCTAGGGAAGGCAAAAACAGAACCAAATAAATGTGTGAGTCAGTGTGCAGCATTTGAAA
131 ACCCCAAGGGACTAATTCATGGTTGTTCCAAAGATAATAGAAATGACACAGAAGGCTTTAAGTATCCATT
132 GGGACATGAAGTTAACCACAGTCGGGAAACAAGCATAGAAATGGAAGAAAGTGAACTTGATGCTCAGTAT
133 TTGCAGAATACATTCAAGGTTTCAAAGCGCCAGTCATTTGCTCCGTTTTCAAATCCAGGAAATGCAGAAG
134 AGGAATGTGCAACATTCTCTGCCCACTCTGGGTCCTTAAAGAAACAAAGTCCAAAAGTCACTTTTGAATG
135 TGAACAAAAGGAAGAAAATCAAGGAAAGAATGAGTCTAATATCAAGCCTGTACAGACAGTTAATATCACT
136 GCAGGCTTTCCTGTGGTTGGTCAGAAAGATAAGCCAGTTGATAATGCCAAATGTAGTATCAAAGGAGGCT
137 CTAGGTTTTGTCTATCATCTCAGTTCAGAGGCAACGAAACTGGACTCATTACTCCAAATAAACATGGACT
138 TTTACAAAACCCATATCGTATACCACCACTTTTTCCCATCAAGTCATTTGTTAAAACTAAATGTAAGAAA
139 AATCTGCTAGAGGAAAACTTTGAGGAACATTCAATGTCACCTGAAAGAGAAATGGGAAATGAGAACATTC
140 CAAGTACAGTGAGCACAATTAGCCGTAATAACATTAGAGAAAATGTTTTTAAAGAAGCCAGCTCAAGCAA
141 TATTAATGAAGTAGGTTCCAGTACTAATGAAGTGGGCTCCAGTATTAATGAAATAGGTTCCAGTGATGAA
142 AACATTCAAGCAGAACTAGGTAGAAACAGAGGGCCAAAATTGAATGCTATGCTTAGATTAGGGGTTTTGC
143 AACCTGAGGTCTATAAACAAAGTCTTCCTGGAAGTAATTGTAAGCATCCTGAAATAAAAAAGCAAGAATA
144 TGAAGAAGTAGTTCAGACTGTTAATACAGATTTCTCTCCATATCTGATTTCAGATAACTTAGAACAGCCT
145 ATGGGAAGTAGTCATGCATCTCAGGTTTGTTCTGAGACACCTGATGACCTGTTAGATGATGGTGAAATAA
146 AGGAAGATACTAGTTTTGCTGAAAATGACATTAAGGAAAGTTCTGCTGTTTTTAGCAAAAGCGTCCAGAA
147 AGGAGAGCTTAGCAGGAGTCCTAGCCCTTTCACCCATACACATTTGGCTCAGGGTTACCGAAGAGGGGCC
148 AAGAAATTAGAGTCCTCAGAAGAGAACTTATCTAGTGAGGATGAAGAGCTTCCCTGCTTCCAACACTTGT
149 TATTTGGTAAAGTAAACAATATACCTTCTCAGTCTACTAGGCATAGCACCGTTGCTACCGAGTGTCTGTC
150 TAAGAACACAGAGGAGAATTTATTATCATTGAAGAATAGCTTAAATGACTGCAGTAACCAGGTAATATTG
151 GCAAAGGCATCTCAGGAACATCACCTTAGTGAGGAAACAAAATGTTCTGCTAGCTTGTTTTCTTCACAGT
152 GCAGTGAATTGGAAGACTTGACTGCAAATACAAACACCCAGGATCCTTTCTTGATTGGTTCTTCCAAACA
153 AATGAGGCATCAGTCTGAAAGCCAGGGAGTTGGTCTGAGTGACAAGGAATTGGTTTCAGATGATGAAGAA
154 AGAGGAACGGGCTTGGAAGAAAATAATCAAGAAGAGCAAAGCATGGATTCAAACTTAGGTGAAGCAGCAT
155 CTGGGTGTGAGAGTGAAACAAGCGTCTCTGAAGACTGCTCAGGGCTATCCTCTCAGAGTGACATTTTAAC
156 CACTCAGCAGAGGGATACCATGCAACATAACCTGATAAAGCTCCAGCAGGAAATGGCTGAACTAGAAGCT
157 GTGTTAGAACAGCATGGGAGCCAGCCTTCTAACAGCTACCCTTCCATCATAAGTGACTCTTCTGCCCTTG
158 AGGACCTGCGAAATCCAGAACAAAGCACATCAGAAAAAGCAGTATTAACTTCACAGAAAAGTAGTGAATA
159 CCCTATAAGCCAGAATCCAGAAGGCCTTTCTGCTGACAAGTTTGAGGTGTCTGCAGATAGTTCTACCAGT
160 AAAAATAAAGAACCAGGAGTGGAAAGGTCATCCCCTTCTAAATGCCCATCATTAGATGATAGGTGGTACA
161 TGCACAGTTGCTCTGGGAGTCTTCAGAATAGAAACTACCCATCTCAAGAGGAGCTCATTAAGGTTGTTGA
162 TGTGGAGGAGCAACAGCTGGAAGAGTCTGGGCCACACGATTTGACGGAAACATCTTACTTGCCAAGGCAA
163 GATCTAGAGGGAACCCCTTACCTGGAATCTGGAATCAGCCTCTTCTCTGATGACCCTGAATCTGATCCTT
164 CTGAAGACAGAGCCCCAGAGTCAGCTCGTGTTGGCAACATACCATCTTCAACCTCTGCATTGAAAGTTCC
165 CCAATTGAAAGTTGCAGAATCTGCCCAGAGTCCAGCTGCTGCTCATACTACTGATACTGCTGGGTATAAT
166 GCAATGGAAGAAAGTGTGAGCAGGGAGAAGCCAGAATTGACAGCTTCAACAGAAAGGGTCAACAAAAGAA
167 TGTCCATGGTGGTGTCTGGCCTGACCCCAGAAGAATTTATGCTCGTGTACAAGTTTGCCAGAAAACACCA
168 CATCACTTTAACTAATCTAATTACTGAAGAGACTACTCATGTTGTTATGAAAACAGATGCTGAGTTTGTG
169 TGTGAACGGACACTGAAATATTTTCTAGGAATTGCGGGAGGAAAATGGGTAGTTAGCTATTTCTGGGTGA
170 CCCAGTCTATTAAAGAAAGAAAAATGCTGAATGAGCATGATTTTGAAGTCAGAGGAGATGTGGTCAATGG
171 AAGAAACCACCAAGGTCCAAAGCGAGCAAGAGAATCCCAGGACAGAAAGATCTTCAGGGGGCTAGAAATC
172 TGTTGCTATGGGCCCTTCACCAACATGCCCACAGATCAACTGGAATGGATGGTACAGCTGTGTGGTGCTT
173 CTGTGGTGAAGGAGCTTTCATCATTCACCCTTGGCACAGGTGTCCACCCAATTGTGGTTGTGCAGCCAGA
174 TGCCTGGACAGAGGACAATGGCTTCCATGCAATTGGGCAGATGTGTGAGGCACCTGTGGTGACCCGAGAG
175 TGGGTGTTGGACAGTGTAGCACTCTACCAGTGCCAGGAGCTGGACACCTACCTGATACCCCAGATCCCCC
176 ACAGCCACTACTGACTGCAGCCAGCCACAGGTACAGAGCCACAGGACCCCAAGAATGAGCTTACAAAGTG
177 GCCTTTCCAGGCCCTGGGAGCTCCTCTCACTCTTCAGTCCTTCTACTGTCCTGGCTACTAAATATTTTAT
178 GTACATCAGCCTGAAAAGGACTTCTGGCTATGCAAGGGTCCCTTAAAGATTTTCTGCTTGAAGTCTCCCT
179 TGGAAATCTGCCATGAGCACAAAATTATGGTAATTTTTCACCTGAGAAGATTTTAAAACCATTTAAACGC
180 CACCAATTGAGCAAGATGCTGATTCATTATTTATCAGCCCTATTCTTTCTATTCAGGCTGTTGTTGGCTT
181 AGGGCTGGAAGCACAGAGTGGCTTGGCCTCAAGAGAATAGCTGGTTTCCCTAAGTTTACTTCTCTAAAAC
182 CCTGTGTTCACAAAGGCAGAGAGTCAGACCCTTCAATGGAAGGAGAGTGCTTGGGATCGATTATGTGACT
183 TAAAGTCAGAATAGTCCTTGGGCAGTTCTCAAATGTTGGAGTGGAACATTGGGGAGGAAATTCTGAGGCA
184 GGTATTAGAAATGAAAAGGAAACTTGAAACCTGGGCATGGTGGCTCACGCCTGTAATCCCAGCACTTTGG
185 GAGGCCAAGGTGGGCAGATCACTGGAGGTCAGGAGTTCGAAACCAGCCTGGCCAACATGGTGAAACCCCA
186 TCTCTACTAAAAATACAGAAATTAGCCGGTCATGGTGGTGGACACCTGTAATCCCAGCTACTCAGGTGGC
187 TAAGGCAGGAGAATCACTTCAGCCCGGGAGGTGGAGGTTGCAGTGAGCCAAGATCATACCACGGCACTCC
188 AGCCTGGGTGACAGTGAGACTGTGGCTCAAAAAAAAAAAAAAAAAAAGGAAAATGAAACTAGAAGAGATT
189 TCTAAAAGTCTGAGATATATTTGCTAGATTTCTAAAGAATGTGTTCTAAAACAGCAGAAGATTTTCAAGA
190 ACCGGTTTCCAAAGACAGTCTTCTAATTCCTCATTAGTAATAAGTAAAATGTTTATTGTTGTAGCTCTGG
191 TATATAATCCATTCCTCTTAAAATATAAGACCTCTGGCATGAATATTTCATATCTATAAAATGACAGATC
192 CCACCAGGAAGGAAGCTGTTGCTTTCTTTGAGGTGATTTTTTTCCTTTGCTCCCTGTTGCTGAAACCATA
193 CAGCTTCATAAATAATTTTGCTTGCTGAAGGAAGAAAAAGTGTTTTTCATAAACCCATTATCCAGGACTG
194 TTTATAGCTGTTGGAAGGACTAGGTCTTCCCTAGCCCCCCCAGTGTGCAAGGGCAGTGAAGACTTGATTG
195 TACAAAATACGTTTTGTAAATGTTGTGCTGTTAACACTGCAAATAAACTTGGTAGCAAACACTTCCAAAA
196 ls
197 less seqs.fa
198 wc seqs.fa
199 more seqs.fa
200 wc seqs.fa
201 tail -n3 seqs.fa
202 mv seqs.fa cancer_genes.fasta
203 curl https://github.com/srobb1/pfb2017/blob/master/files/cuffdiff.txt
204 curl https://raw.githubusercontent.com/srobb1/pfb2017/master/files/cuffdiff.txt > cuff.txt
205 cat cuff.txt
206 head cuff.txt
207 clear
208 head cuff.txt
209 head -n1 cuff.txt
210 man sort
211 sort -n
212 sort -n10 cuff.txt > sorted.cuffdiff.out
213 sort --help
214 sort -h
215 sort --help
216 sort -k 10 cuff.txt > sorted.cuffdiff.out
217 cat sorted.cuffdiff.out
218 cat sorted.cuffdiff.out > less
219 cat sorted.cuffdiff.out > head
220 ls
221 ls -lh
222 head sorted.cuffdiff.out
223 sort --help
224 head sorted.cuffdiff.out
225 sort -r -k 10 cuff.txt > sorted.cuffdiff.out
226 head sorted.cuffdiff.out
227 column -t sorted.cuffdiff.out
228 column -t sorted.cuffdiff.out | head
229 cat sorted.cuffdiff.out | head -n100 > top100.sorted.cufdiff.out
230 column -t top100.sorted.cufdiff.out
231 wc top100.sorted.cufdiff.out
232 sort top100.sorted.cufdiff.out | head -n1
233 sort top100.sorted.cufdiff.out | cut -f1 | head
234 sort top100.sorted.cufdiff.out | cut -f1 | sort uniq | head
235 sort top100.sorted.cufdiff.out | cut -f1 | sort unique | head
236 uniq --help
237 sort top100.sorted.cufdiff.out | cut -f1 | sort uniq | head
238 sort top100.sorted.cufdiff.out | cut -f1 | sort | uniq | head
239 sort top100.sorted.cufdiff.out | cut -f1 | sort | uniq | head -n100 > differentially.expressed.genes.txt
240 head differentially.expressed.genes.txt
241 wc differentially.expressed.genes.txt
242 sort top100.sorted.cufdiff.out | cut -f3 | sort | uniq | head -n10
243 cd
244 ls
245 /
246 ls
247 cd /
248 ls
249 ls -ah
250 ls -als
251 ls *.
252 ls .*
253 ls -als
254 cd /
255 ls
256 cd
257 ls
258 cd
259 ls
260 ls -lh
261 ls -lh
262 cd Desktop/files/
263 ls -lh
264 mkdir Unix_problem_set1
265 cd Unix_problem_set1/
266 cd ..
267 ls -l
268 cd
269 ls
270 cd Desktop/
271 ls -lh
272 cd files/
273 ls -lh
274 ls -F
275 ls -Fah
276 ls -lh
277 cd
278 cd /
279 ls -lh
280 cd home
281 ls
282 cd
283 ls -lh
284 cd
285 ls
286 mv problemsets Desktop/files/Unix_problem_set1/
287 ls
288 cd Desktop/files/Unix_problem_set1/
289 ls -lh
290 cd problemsets/
291 ls -lh
292 cd ..
293 ls
294 cd
295 ls
296 cd Desktop/files/
297 ls
298 cd Unix_problem_set1/
299 ls
300 mv problemsets problemsets1
301 ls
302 cd problemsets1/
303 ls
304 ls
305 cd ..
306 ls -lh
307 cd ..
308 ls
309 ls -lh
310 cd Unix_problem_set1/
311 ls
312 git init problemsets1/
313 echo "# pfb2017_problemsets" >> README.md
314 git init
315 git add README.md
316 git commit -m "first commit"
317 git remote add origin https://github.com/underbais/pfb2017_problemsets.git
318 git push -u origin master
319 git add *
320 git commit -m 'adding previous problem set files'
321 git push
322 ls -lh
323 ls -lh
324 cd problemsets1/
325 ls -lh
326 cat > new_file.txt
327 ls -lh
328 git add new_file.txt
329 git commit -m "new file commit"
330 git remote add origin https://github.com/underbais/pfb2017_problemsets.git
331 git push -u origin master
332 git add new_file.txt
333 git commit -m "new file commit"
334 ls -lh
335 git init
336 git add new_file.txt
337 git commit -m "new file commit"
338 git add *
339 git commit -m "new file commit"
340 git push -u origin master
341 ls -lh
342 git status
343 git add new_file.txt
344 git status
345 ls -lh
346 git pull https://github.com/underbais/pfb2017_problemsets/tree/master/problemsets1
347 get pull
348 git pull
349 git config --list
350 git status
351 git push origin master
352 git pull origin master
353 git push origin master
354 git merge
355 git fpull
356 git pull
357 ls
358 l
359 ls -l
360 git diff
361 ls -a
362 rm -rf ./.git/
363 ls
364 git init
365 git remote add origin https://github.com/underbais/pfb2017_problemsets.git
366 git pull
367 git pull origin master
368 git add problemsets1/
369 git add README.md
370 git commit -m "initial commit"
371 git pull origin master
372 git push origin master
373 cat new.txt
374 echo "this is new file" >> new.txt
375 git add new.txt
376 git status
377 git commit -m "added new file"
378 git push
379 git push origin master
380 git mv new.txt problemsets1/
381 git status
382 git commit -m "moved"
383 git push
384 git push origin master
385 git status
386 echo "another new file" >> new2.txt
387 ls
388 ls -lh
389 git commit new2.txt
390 git add new2.txt
391 git commit -m "another new2 file"
392 git push
393 git push origin master
394 git mv new2.txt problemsets1/
395 git push origin master
396 git commit -m "oops"
397 git push origin master
398 ls -lh
399 pwd
400 cd problemsets1/
401 ls
402 cat new3.txt << echo "file 3 content"
403 ls -lh
404 cd ..
405 ls
406 cd problemsets1/
407 ls
408 echo "file 3" >> new3.txt
409 ls
410 git add new3.txt
411 git commit -m "file 3 added"
412 git push origin master
413 ls -lh
414 mkdir new_folder
415 cd new
416 cd new_folder/
417 touch file1
418 touch file2
419 touch file3
420 ls
421 cd ..
422 ls
423 ls -lh
424 cd new_folder/
425 git init
426 git add *
427 git commit -m "new folder commit"
428 git push
429 git push origin master
430 git push new_folder master
431 cd ..
432 ls
433 ls -l
434 pwd
435 git add *
436 git commit -m "new folder added"
437 git push origin master
438 git status
439 git add new_folder/
440 git commit -m "new folde added again"
441 git add new_folder/*
442 ls -lh
443 pwd
444 git status
445 git add new_folder/
446 git commit -m ' adding new folder'
447 git add new_folder/file1
448 cd ..
449 git status
450 ls
451 cd problemsets1/
452 ls
453 cd ..
454 ls
455 pwd
456 ls
457 cd problemsets1/
458 pwd
459 ls
460 ls
461 cd new_folder/
462 ls
463 git add file*
464 git commit -m 'adding files'
465 cd ..
466 git add new_folder/file*
467 cd ..
468 git add problemsets1/new_folder/file*
469 git status
470 ls
471 cd problemsets1/
472 ls
473 pwd
474 ls -lh
475 cd new_folder/
476 ls
477 history | tail -20
478 history | tail -30
479 ls
480 ls -a
481 cd ../
482 ls
483 pwd
484 ls
485 cd ../
486 ls
487 ls -a
488 pwd
489 ls
490 ls problemsets1/
491 ls
492 l .git/
493 ls
494 ls -lh
495 pwd
496 rm problemsets1/
497 rmdir problemsets1/
498 rmdir -f problemsets1/
499 cd problemsets1/
500 ls
501 rm *
502 ls -lh
503 ls
504 pwd
505 cd ..
506 cd problemsets1/
507 ls -lh
508 cd ..
509 ls
510 rmdir problemsets1/
511 ls -lh
512 rm README.md
513 ls -lh
514 rm new_file.txt
515 ls -lh
516 rm head less
517 ls -lh
518 echo "# new_pfb2017_problemlsets" >> README.md
519 ls -lh
520 git init
521 git add README.md
522 git commit -m "first commit"
523 git remote add origin https://github.com/underbais/new_pfb2017_problemlsets.git
524 git push -u origin master
525 git remote add origin https://github.com/underbais/new_pfb2017_problemlsets.git
526 git push -u origin master
527 ls -a
528 pwd
529 ls -lh
530 ls -ah
531 ls -lh
532 echo "# new_pfb2017_problemlsets" >> README.md
533 git init
534 git add README.md
535 git commit -m "first commit"
536 git remote add origin https://github.com/underbais/new_pfb2017_problemlsets.git
537 git push -u origin master
538 ls -lh
539 pwd
540 git status
541 pwd
542 ls -a
543 ls -a
544 ls -ah
545 pwd
546 cd ..
547 ls -lh
548 pwd
549 mkdir new_problemset1
550 ls -a
551 pwd
552 cd new_problemset1/
553 pwd
554 cd ..
555 ls
556 cd problemsets1/
557 ls
558 cp cancer_genes.fasta cuff.txt differentially.expressed.genes.txt sorted.cuffdiff.out top100.sorted.cufdiff.out /Users/admin/Desktop/files/Unix_problem_set1/new_problemset1
559 cd ..
560 l
561 ls
562 cd new_problemset1/
563 ls -lh
564 pwd
565 echo "# new_pfb2017_problemlsets" >> README.md
566 ls -lh
567 git init
568 git add README.md
569 git commit -m "new repo commit"
570 git remote add origin https://github.com/underbais/new_pfb2017_problemlsets.git
571 git push -u origin master
572 pwd
573 ls -lh
574 mkdir new_folder
575 cd new_folder/
576 echo 'new file' >> new.txt
577 ls -lh
578 pwd
579 cd ..
580 ls
581 ls -lh
582 git add new_folder/
583 git commit -m 'added new folder'
584 git push origin master
585 ls -lh
586 echo "another new file" >> newfile.txt
587 pwd
588 ls -lh
589 git add newfile.txt
590 git commit -m 'new file added'
591 git push
592 nano mysequences.txt
593 ls
594 ls
595 ls -lh
596 git add mysequences.txt
597 git commit -m "myseq added"
598 git push
599 mkdir fastas
600 ls
601 cp cancer_genes.fasta fastas
602 rm cancer_genes.fasta
603 git add *
604 git commit -m "folde added"
605 git push
606 history > unixBasics.history.txt