Matthew Andres Moreno mmore500
mmore500
/ 0-v1.17.1.newick
Last active
January 3, 2025 15:10
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| (((((((((((((((((((((:83):128):242):4):4):4):18):32):32):96):64):64):64):64):64,(((((((((((((:452):2):8):4):18):32):32):32):64):64):64,(((((((((:401):4):4):4):18):32):64):64):64):64):64):64):64):64):64,((((((((((((((:428):4):8):18):32):32):32):64):64):64):64):64):64):64):64):128,(((((((((((((((:184):240):2):8):4):18):32):64):64):64,(((((((((:355):96):6):4):4):18):64):32):64):64):64):64):64):64):128):128):256,((((((((((((((((((((((:58):40):16):56):112):128):34):4):4):4):18):64):32):64):64):64):64):64):64):64):64):128,((((((((((((:467):4):18):32):64):64):64):64):64):64):64):128):128):256):256,((((((((((((((((((:225):176):38):4):4):18):32):64):64):64,((((((((:476):4):4):4):18):32):64):64):64):64):64):64):64):64):64,(((((((((((((((((((((:124):64):80):32):32):64):34):4):4):4):18):32):32):32):64):64):64):64):64):64):64,((((((((((((((((((:108):48):32):16):80):32):134):8):18):32):32):32):64):64):64):64):64):64):64):64):128):256,((((((((((((((((((((:165):64):32):96):98):4):4):4):18):32):32):96):64):64):64):64):64):64) |
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| /etc/profile.d/modules.sh: line 11: /etc/eessi/init_eessi_icer: Permission denied | |
| initialization telemetry ------------------------------------ 0 | |
| SOURCE_REVISION f9c054a01fd961b22731cde6fb22de84e23871d9 | |
| BATCHDIR /mnt/home/mmore500/scratch/hstrat-reconstruction-algo/2024-12-28-bigreconstruct-v1.16.0-bigmem/2025-01-02 | |
| cc SLURM script --------------------------------------------- 0 | |
| JOBSCRIPT /mnt/home/mmore500/jobscript/47988778 | |
| cc job log -------------------------------------------------- 0 | |
| JOBLOG /mnt/home/mmore500/joblog/47988778 | |
| setup JOBDIR ------------------------------------------------ 0 | |
| JOBDIR /mnt/home/mmore500/scratch/hstrat-reconstruction-algo/2024-12-28-bigreconstruct-v1.16.0-bigmem/2025-01-02/__0 |
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| (function() { | |
| 'use strict'; | |
| const attributesToRemove = [ | |
| 'spellcheck', | |
| 'data-gramm', | |
| 'data-gramm_editor', | |
| 'data-enable-grammarly', | |
| 'data-enabled-grammarly', | |
| 'data-language' |
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mmore500
/ reconstruction-quality-experiment.ipynb
Last active
February 1, 2024 17:24
reconstruction-quality-experiment.ipynb
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| from datetime import datetime, timedelta | |
| import itertools as it | |
| import typing | |
| from matplotlib import pyplot as plt | |
| from matplotlib import text as mpl_text | |
| import numpy as np | |
| import outset as otst | |
| import opytional as opyt | |
| import pandas as pd |
mmore500
/ .gitattributes
Last active
December 9, 2023 22:38
Scheme to trim trailing whitespace from diffs via git filter
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| * text eol=lf filter=cleanWhitespace |
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| mkdir -p ~/.cloudshell/ | |
| touch ~/.cloudshell/no-apt-get-warning | |
| sudo apt-get update -y | |
| sudo apt-get install -y aptitude | |
| sudo aptitude install -y libgdal-dev libproj-dev r-base | |
| sudo Rscript -e "install.packages(c('codetools', 'dplyr', 'gen3sis', 'gdistance', 'ggplot2', 'Matrix', 'raster', 'rgdal'))" |
mmore500
/ _estimate_rank_of_mrca_between_unbiased.py
Created
February 7, 2023 05:34
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| def _estimate_rank_of_mrca_between_unbiased( | |
| first: HereditaryStratigraphicColumn, | |
| second: HereditaryStratigraphicColumn, | |
| ) -> typing.Optional[float]: | |
| ranks_of_retained_commonality_between = [ | |
| *iter_ranks_of_retained_commonality_between_generic(first, second) | |
| ] | |
| if not ranks_of_retained_commonality_between: | |
| return None |
mmore500
/ _DecantingPhyloTracker.py
Created
February 5, 2023 07:09
DecantingPhyloTracker in-progress
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| import typing | |
| import numpy as np | |
| import pandas as pd | |
| from ..._auxiliary_lib import indices_of_unique | |
| from ._compile_phylogeny_from_lineage_iters import ( | |
| compile_phylogeny_from_lineage_iters, | |
| ) |
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