I hereby claim:
- I am roryk on github.
- I am roryk (https://keybase.io/roryk) on keybase.
- I have a public key whose fingerprint is 7C28 113B F748 6132 2854 81AD 06E8 EF6A D433 A483
To claim this, I am signing this object:
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| diff -rupN libmaus-0.0.104-release-20140221093548/src/libmaus/aio/PosixFdInput.hpp new/src/libmaus/aio/PosixFdInput.hpp | |
| --- libmaus-0.0.104-release-20140221093548/src/libmaus/aio/PosixFdInput.hpp 2014-02-21 04:36:04.000000000 -0500 | |
| +++ new/src/libmaus/aio/PosixFdInput.hpp 2014-04-14 12:21:04.000000000 -0400 | |
| @@ -46,7 +46,10 @@ namespace libmaus | |
| public: | |
| static int getDefaultFlags() | |
| { | |
| + #ifndef __APPLE__ | |
| return O_RDONLY|O_NOATIME|O_LARGEFILE; | |
| + #endif |
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| diff -rupN libmaus-0.0.104-release-20140221093548/src/libmaus/aio/PosixFdInput.hpp new/src/libmaus/aio/PosixFdInput.hpp | |
| --- libmaus-0.0.104-release-20140221093548/src/libmaus/aio/PosixFdInput.hpp 2014-02-21 04:36:04.000000000 -0500 | |
| +++ new/src/libmaus/aio/PosixFdInput.hpp 2014-04-14 12:21:04.000000000 -0400 | |
| @@ -46,7 +46,10 @@ namespace libmaus | |
| public: | |
| static int getDefaultFlags() | |
| { | |
| + #ifndef __APPLE__ | |
| return O_RDONLY|O_NOATIME|O_LARGEFILE; | |
| + #endif |
roryk
/ gist:ed9b58d724da84ebc0ff
Last active
August 29, 2015 14:03
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| import gffutils | |
| import os | |
| gtf = "path/to/your/gtf/file" | |
| def get_gtf_db(gtf, in_memory=False): | |
| db_file = ":memory:" if in_memory else gtf + ".db" | |
| if in_memory or not os.path.exists(db_file): | |
| db = gffutils.create_db(gtf, dbfn=db_file) | |
| if in_memory: |
roryk
/ keybase.md
Created
August 20, 2014 15:37
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| STAR version=STAR_2.4.0e | |
| STAR compilation time,server,dir=Fri Oct 24 10:43:53 EDT 2014 verona.cshl.edu:/sonas-hs/gingeras/nlsas_norepl/user/dobin/STAR/STAR.sandbox/source | |
| ##### DEFAULT parameters: | |
| versionSTAR 20201 | |
| versionGenome 20101 20200 | |
| parametersFiles - | |
| runMode alignReads | |
| runThreadN 1 | |
| genomeDir ./GenomeDir/ | |
| genomeLoad NoSharedMemory |
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| MOD_NAME=Commander's Choice - LW | |
| AUTHOR=Peasly Wellbott | |
| DESCRIPTION=Choose the class of your Squaddies! When being prompted to pick a Squaddie's first skill, the "Cycle Soldier" buttons on the bottom of the screen will instead cycle the soldier's class! Does not affect MECs or any soldier who has locked in their specialty, but should work for reward soldiers and special soldiers. | |
| Version: 1.0 | |
| Compatible with XCOM Long War versions: | |
| - All hopefully | |
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| >chrM | |
| GTTAATGTAGCTTAATAACAAAGCAAAGCACTGAAAATGCTTAGATGGAT | |
| AATTGTATCCCATAAACACAAAGGTTTGGTCCTGGCCTTATAATTAATTA | |
| GAGGTAAAATTACACATGCAAACCTCCATAGACCGGTGTAAAATCCCTTA | |
| AACATTTACTTAAAATTTAAGGAGAGGGTATCAAGCACATTAAAATAGCT | |
| TAAGACACCTTGCCTAGCCACACCCCCACGGGACTCAGCAGTGATAAATA | |
| TTAAGCAATAAACGAAAGTTTGACTAAGTTATACCTCTTAGGGTTGGTAA | |
| ATTTCGTGCCAGCCACCGCGGTCATACGATTAACCCAAACTAATTATCTT | |
| CGGCGTAAAACGTGTCAACTATAAATAAATAAATAGAATTAAAATCCAAC | |
| TTATATGTGAAAATTCATTGTTAGGACCTAAACTCAATAACGAAAGTAAT |
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| import numpy | |
| import scipy.stats as stats | |
| def outlier_resistant(coverage): | |
| median = float(numpy.median(coverage)) | |
| deviations = [abs(x - median) for x in coverage] | |
| # median absolute deviation estimator of the standard deviation | |
| mad = 1.4826 * float(numpy.median(deviations)) | |
| return int(median), int(mad) |
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| [ 51%] Performing build step for 'libsparsehash' | |
| cd /tmp/sailfish20150920-18016-i304l8/sailfish-0.7.4/external/sparsehash-sparsehash-2.0.2 && /Applications/Xcode.app/Contents/Developer/usr/bin/make | |
| [ -d src/sparsehash/internal ] || mkdir -p src/sparsehash/internal | |
| echo "/*" > src/sparsehash/internal/_sparsehash_config | |
| echo " * NOTE: This file is for internal use only." >> src/sparsehash/internal/_sparsehash_config | |
| echo " * Do not use these #defines in your own program!" >> src/sparsehash/internal/_sparsehash_config | |
| echo " */" >> src/sparsehash/internal/_sparsehash_config | |
| awk '{prevline=currline; currline=$0;} \ | |
| /^#/ {in_second_file = 1;} \ | |
| !in_second_file {if (currline !~ /^ *$/) {inc[currline]=0}}; \ |
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| ; from http://newsgroups.derkeiler.com/Archive/Comp/comp.emacs/2005-12/msg00064.html saved for posterity | |
| (defalias 'puffer-lesen 'eval-buffer-or-region-step-by-step) | |
| (defun eval-buffer-or-region-step-by-step () | |
| "Stepps through region if activated, otherwise takes the whole buffer | |
| evaluating last-sexp and messaging point. As `eval-last-sexp' exits | |
| encountering an error, you may easily pick the last point. | |
| Attention: Commands changing the current-buffer as `find-file' will | |
| derail the check." | |
| (interactive) |
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