MAINT: vscode et al (#5)
This commit is contained in:
GitHub
parent
98c89a360d
commit
d070b2d27a
21 changed files with 531 additions and 734 deletions
|
|
@ -20,14 +20,19 @@ $ nix-env -i \
|
|||
htop \
|
||||
mr \
|
||||
postgresql \
|
||||
reattach-to-user-namespace \
|
||||
silver-searcher \
|
||||
tmux \
|
||||
vim \
|
||||
wget \
|
||||
xz
|
||||
$ base16_ashes
|
||||
$ curl -fLo ~/.vim/autoload/plug.vim --create-dirs https://raw.githubusercontent.com/junegunn/vim-plug/master/plug.vim
|
||||
$ vim +PlugInstall
|
||||
$ code --install-extension AndrsDC.base16-themes
|
||||
$ code --install-extension lextudio.restructuredtext
|
||||
$ code --install-extension ms-python.python
|
||||
$ code --install-extension vscodevim.vim
|
||||
$ code --install-extension alefragnani.project-manager
|
||||
$ code --install-extension donjayamanne.githistory
|
||||
$ mr checkout
|
||||
$ wget https://repo.anaconda.com/miniconda/Miniconda3-latest-MacOSX-x86_64.sh
|
||||
$ sudo sh Miniconda3-latest-MacOSX-x86_64.sh -p /opt/miniconda3 -b
|
||||
|
|
|
|||
355
alacritty.yml
355
alacritty.yml
|
|
@ -1,355 +0,0 @@
|
|||
window:
|
||||
dimensions:
|
||||
columns: 0
|
||||
lines: 0
|
||||
padding:
|
||||
x: 2
|
||||
y: 2
|
||||
decorations: full
|
||||
scrolling:
|
||||
history: 10000
|
||||
multiplier: 3
|
||||
auto_scroll: false
|
||||
tabspaces: 8
|
||||
font:
|
||||
normal:
|
||||
family: Anonymous Pro
|
||||
bold:
|
||||
family: Anonymous Pro
|
||||
italic:
|
||||
family: Anonymous Pro
|
||||
size: 12.0
|
||||
offset:
|
||||
x: 0
|
||||
y: 0
|
||||
glyph_offset:
|
||||
x: 0
|
||||
y: 0
|
||||
draw_bold_text_with_bright_colors: true
|
||||
|
||||
#### Unmodified from here down:
|
||||
# Colors (Tomorrow Night Bright)
|
||||
colors:
|
||||
# Default colors
|
||||
primary:
|
||||
background: '0x000000'
|
||||
foreground: '0xeaeaea'
|
||||
|
||||
# Bright and dim foreground colors
|
||||
#
|
||||
# The dimmed foreground color is calculated automatically if it is not present.
|
||||
# If the bright foreground color is not set, or `draw_bold_text_with_bright_colors`
|
||||
# is `false`, the normal foreground color will be used.
|
||||
#
|
||||
#dim_foreground: '0x9a9a9a'
|
||||
#bright_foreground: '0xffffff'
|
||||
|
||||
# Cursor colors
|
||||
#
|
||||
# These will only be used when the `custom_cursor_colors` field is set to `true`.
|
||||
cursor:
|
||||
text: '0x000000'
|
||||
cursor: '0xffffff'
|
||||
|
||||
# Normal colors
|
||||
normal:
|
||||
black: '0x000000'
|
||||
red: '0xd54e53'
|
||||
green: '0xb9ca4a'
|
||||
yellow: '0xe6c547'
|
||||
blue: '0x7aa6da'
|
||||
magenta: '0xc397d8'
|
||||
cyan: '0x70c0ba'
|
||||
white: '0xffffff'
|
||||
|
||||
# Bright colors
|
||||
bright:
|
||||
black: '0x666666'
|
||||
red: '0xff3334'
|
||||
green: '0x9ec400'
|
||||
yellow: '0xe7c547'
|
||||
blue: '0x7aa6da'
|
||||
magenta: '0xb77ee0'
|
||||
cyan: '0x54ced6'
|
||||
white: '0xffffff'
|
||||
|
||||
# Dim colors
|
||||
#
|
||||
# If the dim colors are not set, they will be calculated automatically based
|
||||
# on the `normal` colors.
|
||||
dim:
|
||||
black: '0x333333'
|
||||
red: '0xf2777a'
|
||||
green: '0x99cc99'
|
||||
yellow: '0xffcc66'
|
||||
blue: '0x6699cc'
|
||||
magenta: '0xcc99cc'
|
||||
cyan: '0x66cccc'
|
||||
white: '0xdddddd'
|
||||
|
||||
# Indexed Colors
|
||||
#
|
||||
# The indexed colors include all colors from 16 to 256.
|
||||
# When these are not set, they're filled with sensible defaults.
|
||||
#
|
||||
#indexed_colors:
|
||||
# - { index: 16, color: '0x000000' }
|
||||
|
||||
# Visual Bell
|
||||
#
|
||||
# Any time the BEL code is received, Alacritty "rings" the visual bell. Once
|
||||
# rung, the terminal background will be set to white and transition back to the
|
||||
# default background color. You can control the rate of this transition by
|
||||
# setting the `duration` property (represented in milliseconds). You can also
|
||||
# configure the transition function by setting the `animation` property.
|
||||
#
|
||||
# Values for `animation`:
|
||||
# - Ease
|
||||
# - EaseOut
|
||||
# - EaseOutSine
|
||||
# - EaseOutQuad
|
||||
# - EaseOutCubic
|
||||
# - EaseOutQuart
|
||||
# - EaseOutQuint
|
||||
# - EaseOutExpo
|
||||
# - EaseOutCirc
|
||||
# - Linear
|
||||
#
|
||||
# Specifying a `duration` of `0` will disable the visual bell.
|
||||
visual_bell:
|
||||
animation: EaseOutExpo
|
||||
duration: 0
|
||||
|
||||
# Background opacity
|
||||
#
|
||||
# Window opacity as a floating point number from `0.0` to `1.0`.
|
||||
# The value `0.0` is completely transparent and `1.0` is opaque.
|
||||
background_opacity: 1.0
|
||||
|
||||
# Mouse bindings
|
||||
#
|
||||
# Available fields:
|
||||
# - mouse
|
||||
# - action
|
||||
# - mods (optional)
|
||||
#
|
||||
# Values for `mouse`:
|
||||
# - Middle
|
||||
# - Left
|
||||
# - Right
|
||||
# - Numeric identifier such as `5`
|
||||
#
|
||||
# All available `mods` and `action` values are documented in the key binding
|
||||
# section.
|
||||
mouse_bindings:
|
||||
- { mouse: Middle, action: PasteSelection }
|
||||
|
||||
mouse:
|
||||
# Click settings
|
||||
#
|
||||
# The `double_click` and `triple_click` settings control the time
|
||||
# alacritty should wait for accepting multiple clicks as one double
|
||||
# or triple click.
|
||||
double_click: { threshold: 300 }
|
||||
triple_click: { threshold: 300 }
|
||||
|
||||
selection:
|
||||
semantic_escape_chars: ",│`|:\"' ()[]{}<>"
|
||||
|
||||
# When set to `true`, selected text will be copied to both the primary and
|
||||
# the selection clipboard. Otherwise, it will only be copied to the selection
|
||||
# clipboard.
|
||||
save_to_clipboard: false
|
||||
|
||||
dynamic_title: true
|
||||
|
||||
# Live config reload (changes require restart)
|
||||
live_config_reload: true
|
||||
|
||||
# Shell
|
||||
#
|
||||
# You can set `shell.program` to the path of your favorite shell, e.g. `/bin/fish`.
|
||||
# Entries in `shell.args` are passed unmodified as arguments to the shell.
|
||||
#
|
||||
#shell:
|
||||
# program: /bin/bash
|
||||
# args:
|
||||
# - --login
|
||||
|
||||
# Key bindings
|
||||
#
|
||||
# Key bindings are specified as a list of objects. Each binding will specify
|
||||
# a key and modifiers required to trigger it, terminal modes where the binding
|
||||
# is applicable, and what should be done when the key binding fires. It can
|
||||
# either send a byte sequnce to the running application (`chars`), execute
|
||||
# a predefined action (`action`) or fork and execute a specified command plus
|
||||
# arguments (`command`).
|
||||
#
|
||||
# Example:
|
||||
# `- { key: V, mods: Command, action: Paste }`
|
||||
#
|
||||
# Available fields:
|
||||
# - key
|
||||
# - mods (optional)
|
||||
# - chars | action | command (exactly one required)
|
||||
# - mode (optional)
|
||||
#
|
||||
# Values for `key`:
|
||||
# - `A` -> `Z`
|
||||
# - `F1` -> `F12`
|
||||
# - `Key1` -> `Key0`
|
||||
#
|
||||
# A full list with available key codes can be found here:
|
||||
# https://docs.rs/glutin/*/glutin/enum.VirtualKeyCode.html#variants
|
||||
#
|
||||
# Values for `mods`:
|
||||
# - Command
|
||||
# - Control
|
||||
# - Shift
|
||||
# - Alt
|
||||
#
|
||||
# Multiple `mods` can be combined using `|` like this: `mods: Control|Shift`.
|
||||
# Whitespace and capitalization is relevant and must match the example.
|
||||
#
|
||||
# Values for `chars`:
|
||||
# The `chars` field writes the specified string to the terminal. This makes
|
||||
# it possible to pass escape sequences.
|
||||
# To find escape codes for bindings like `PageUp` ("\x1b[5~"), you can run
|
||||
# the command `showkey -a` outside of tmux.
|
||||
# Note that applications use terminfo to map escape sequences back to
|
||||
# keys. It is therefore required to update the terminfo when
|
||||
# changing an escape sequence.
|
||||
#
|
||||
# Values for `action`:
|
||||
# - Paste
|
||||
# - PasteSelection
|
||||
# - Copy
|
||||
# - IncreaseFontSize
|
||||
# - DecreaseFontSize
|
||||
# - ResetFontSize
|
||||
# - ScrollPageUp
|
||||
# - ScrollPageDown
|
||||
# - ScrollToTop
|
||||
# - ScrollToBottom
|
||||
# - ClearHistory
|
||||
# - Hide
|
||||
# - Quit
|
||||
#
|
||||
# Values for `command`:
|
||||
# The `command` field must be a map containing a `program` string and
|
||||
# an `args` array of command line parameter strings.
|
||||
#
|
||||
# Example:
|
||||
# `command: { program: "alacritty", args: ["-e", "vttest"] }`
|
||||
#
|
||||
# Values for `mode`:
|
||||
# - ~AppCursor
|
||||
# - AppCursor
|
||||
# - ~AppKeypad
|
||||
# - AppKeypad
|
||||
key_bindings:
|
||||
- { key: V, mods: Control|Shift, action: Paste }
|
||||
- { key: C, mods: Control|Shift, action: Copy }
|
||||
- { key: Paste, action: Paste }
|
||||
- { key: Copy, action: Copy }
|
||||
- { key: Q, mods: Command, action: Quit }
|
||||
- { key: W, mods: Command, action: Quit }
|
||||
- { key: Insert, mods: Shift, action: PasteSelection }
|
||||
- { key: Key0, mods: Control, action: ResetFontSize }
|
||||
- { key: Equals, mods: Control, action: IncreaseFontSize }
|
||||
- { key: Subtract, mods: Control, action: DecreaseFontSize }
|
||||
- { key: Home, chars: "\x1bOH", mode: AppCursor }
|
||||
- { key: Home, chars: "\x1b[H", mode: ~AppCursor }
|
||||
- { key: End, chars: "\x1bOF", mode: AppCursor }
|
||||
- { key: End, chars: "\x1b[F", mode: ~AppCursor }
|
||||
- { key: PageUp, mods: Shift, chars: "\x1b[5;2~" }
|
||||
- { key: PageUp, mods: Control, chars: "\x1b[5;5~" }
|
||||
- { key: PageUp, chars: "\x1b[5~" }
|
||||
- { key: PageDown, mods: Shift, chars: "\x1b[6;2~" }
|
||||
- { key: PageDown, mods: Control, chars: "\x1b[6;5~" }
|
||||
- { key: PageDown, chars: "\x1b[6~" }
|
||||
- { key: Tab, mods: Shift, chars: "\x1b[Z" }
|
||||
- { key: Back, chars: "\x7f" }
|
||||
- { key: Back, mods: Alt, chars: "\x1b\x7f" }
|
||||
- { key: Insert, chars: "\x1b[2~" }
|
||||
- { key: Delete, chars: "\x1b[3~" }
|
||||
- { key: Left, mods: Shift, chars: "\x1b[1;2D" }
|
||||
- { key: Left, mods: Control, chars: "\x1b[1;5D" }
|
||||
- { key: Left, mods: Alt, chars: "\x1b[1;3D" }
|
||||
- { key: Left, chars: "\x1b[D", mode: ~AppCursor }
|
||||
- { key: Left, chars: "\x1bOD", mode: AppCursor }
|
||||
- { key: Right, mods: Shift, chars: "\x1b[1;2C" }
|
||||
- { key: Right, mods: Control, chars: "\x1b[1;5C" }
|
||||
- { key: Right, mods: Alt, chars: "\x1b[1;3C" }
|
||||
- { key: Right, chars: "\x1b[C", mode: ~AppCursor }
|
||||
- { key: Right, chars: "\x1bOC", mode: AppCursor }
|
||||
- { key: Up, mods: Shift, chars: "\x1b[1;2A" }
|
||||
- { key: Up, mods: Control, chars: "\x1b[1;5A" }
|
||||
- { key: Up, mods: Alt, chars: "\x1b[1;3A" }
|
||||
- { key: Up, chars: "\x1b[A", mode: ~AppCursor }
|
||||
- { key: Up, chars: "\x1bOA", mode: AppCursor }
|
||||
- { key: Down, mods: Shift, chars: "\x1b[1;2B" }
|
||||
- { key: Down, mods: Control, chars: "\x1b[1;5B" }
|
||||
- { key: Down, mods: Alt, chars: "\x1b[1;3B" }
|
||||
- { key: Down, chars: "\x1b[B", mode: ~AppCursor }
|
||||
- { key: Down, chars: "\x1bOB", mode: AppCursor }
|
||||
- { key: F1, chars: "\x1bOP" }
|
||||
- { key: F2, chars: "\x1bOQ" }
|
||||
- { key: F3, chars: "\x1bOR" }
|
||||
- { key: F4, chars: "\x1bOS" }
|
||||
- { key: F5, chars: "\x1b[15~" }
|
||||
- { key: F6, chars: "\x1b[17~" }
|
||||
- { key: F7, chars: "\x1b[18~" }
|
||||
- { key: F8, chars: "\x1b[19~" }
|
||||
- { key: F9, chars: "\x1b[20~" }
|
||||
- { key: F10, chars: "\x1b[21~" }
|
||||
- { key: F11, chars: "\x1b[23~" }
|
||||
- { key: F12, chars: "\x1b[24~" }
|
||||
- { key: F1, mods: Shift, chars: "\x1b[1;2P" }
|
||||
- { key: F2, mods: Shift, chars: "\x1b[1;2Q" }
|
||||
- { key: F3, mods: Shift, chars: "\x1b[1;2R" }
|
||||
- { key: F4, mods: Shift, chars: "\x1b[1;2S" }
|
||||
- { key: F5, mods: Shift, chars: "\x1b[15;2~" }
|
||||
- { key: F6, mods: Shift, chars: "\x1b[17;2~" }
|
||||
- { key: F7, mods: Shift, chars: "\x1b[18;2~" }
|
||||
- { key: F8, mods: Shift, chars: "\x1b[19;2~" }
|
||||
- { key: F9, mods: Shift, chars: "\x1b[20;2~" }
|
||||
- { key: F10, mods: Shift, chars: "\x1b[21;2~" }
|
||||
- { key: F11, mods: Shift, chars: "\x1b[23;2~" }
|
||||
- { key: F12, mods: Shift, chars: "\x1b[24;2~" }
|
||||
- { key: F1, mods: Control, chars: "\x1b[1;5P" }
|
||||
- { key: F2, mods: Control, chars: "\x1b[1;5Q" }
|
||||
- { key: F3, mods: Control, chars: "\x1b[1;5R" }
|
||||
- { key: F4, mods: Control, chars: "\x1b[1;5S" }
|
||||
- { key: F5, mods: Control, chars: "\x1b[15;5~" }
|
||||
- { key: F6, mods: Control, chars: "\x1b[17;5~" }
|
||||
- { key: F7, mods: Control, chars: "\x1b[18;5~" }
|
||||
- { key: F8, mods: Control, chars: "\x1b[19;5~" }
|
||||
- { key: F9, mods: Control, chars: "\x1b[20;5~" }
|
||||
- { key: F10, mods: Control, chars: "\x1b[21;5~" }
|
||||
- { key: F11, mods: Control, chars: "\x1b[23;5~" }
|
||||
- { key: F12, mods: Control, chars: "\x1b[24;5~" }
|
||||
- { key: F1, mods: Alt, chars: "\x1b[1;6P" }
|
||||
- { key: F2, mods: Alt, chars: "\x1b[1;6Q" }
|
||||
- { key: F3, mods: Alt, chars: "\x1b[1;6R" }
|
||||
- { key: F4, mods: Alt, chars: "\x1b[1;6S" }
|
||||
- { key: F5, mods: Alt, chars: "\x1b[15;6~" }
|
||||
- { key: F6, mods: Alt, chars: "\x1b[17;6~" }
|
||||
- { key: F7, mods: Alt, chars: "\x1b[18;6~" }
|
||||
- { key: F8, mods: Alt, chars: "\x1b[19;6~" }
|
||||
- { key: F9, mods: Alt, chars: "\x1b[20;6~" }
|
||||
- { key: F10, mods: Alt, chars: "\x1b[21;6~" }
|
||||
- { key: F11, mods: Alt, chars: "\x1b[23;6~" }
|
||||
- { key: F12, mods: Alt, chars: "\x1b[24;6~" }
|
||||
- { key: F1, mods: Super, chars: "\x1b[1;3P" }
|
||||
- { key: F2, mods: Super, chars: "\x1b[1;3Q" }
|
||||
- { key: F3, mods: Super, chars: "\x1b[1;3R" }
|
||||
- { key: F4, mods: Super, chars: "\x1b[1;3S" }
|
||||
- { key: F5, mods: Super, chars: "\x1b[15;3~" }
|
||||
- { key: F6, mods: Super, chars: "\x1b[17;3~" }
|
||||
- { key: F7, mods: Super, chars: "\x1b[18;3~" }
|
||||
- { key: F8, mods: Super, chars: "\x1b[19;3~" }
|
||||
- { key: F9, mods: Super, chars: "\x1b[20;3~" }
|
||||
- { key: F10, mods: Super, chars: "\x1b[21;3~" }
|
||||
- { key: F11, mods: Super, chars: "\x1b[23;3~" }
|
||||
- { key: F12, mods: Super, chars: "\x1b[24;3~" }
|
||||
|
|
@ -1,61 +0,0 @@
|
|||
personal_ws-1.1 en 60
|
||||
dada
|
||||
py
|
||||
TSV
|
||||
tsv
|
||||
demultiplex
|
||||
Jaccard
|
||||
qiime
|
||||
url
|
||||
ASV
|
||||
OTUs
|
||||
cli
|
||||
saveas
|
||||
dev
|
||||
metadata
|
||||
filepath
|
||||
clade
|
||||
demultiplexed
|
||||
Miniconda
|
||||
subsample
|
||||
phylogenetic
|
||||
wget
|
||||
genotype
|
||||
informatics
|
||||
dir
|
||||
qza
|
||||
subsampled
|
||||
conda
|
||||
denoising
|
||||
microbiome
|
||||
confounders
|
||||
covariate
|
||||
Orchanian
|
||||
PairedEndSequencesWithQuality
|
||||
PCoA
|
||||
qzv
|
||||
MiSeq
|
||||
Illumina
|
||||
covariates
|
||||
SequencesWithQuality
|
||||
dataset
|
||||
genotypes
|
||||
macOS
|
||||
Pielou's
|
||||
SampleData
|
||||
denoised
|
||||
osx
|
||||
linux
|
||||
EMP
|
||||
linenos
|
||||
unifrac
|
||||
UniFrac
|
||||
univariate
|
||||
differentially
|
||||
ASVs
|
||||
yml
|
||||
env
|
||||
denoise
|
||||
demultiplexing
|
||||
shannon
|
||||
demuliplexed
|
||||
21
beets.yaml
21
beets.yaml
|
|
@ -1,21 +0,0 @@
|
|||
directory: ~/Music/beets/
|
||||
|
||||
library: ~/Music/beets/mrdlib.blb
|
||||
|
||||
import:
|
||||
copy: true
|
||||
write: true
|
||||
resume: ask
|
||||
art: true
|
||||
quiet_fallback: skip
|
||||
timid: true
|
||||
log: beetslog.txt
|
||||
|
||||
art_filename: albumart
|
||||
|
||||
pluginpath:
|
||||
- ~/Music/beets/myplugins
|
||||
|
||||
threaded: false
|
||||
|
||||
color: true
|
||||
|
|
@ -2,7 +2,7 @@
|
|||
name = Matthew Dillon
|
||||
email = matthewrdillon@gmail.com
|
||||
[core]
|
||||
editor = vim
|
||||
editor = code --wait
|
||||
excludesfile = /Users/matthew/.gitignore_global
|
||||
[color]
|
||||
diff = auto
|
||||
|
|
|
|||
|
|
@ -1,3 +1,4 @@
|
|||
*~
|
||||
.DS_Store
|
||||
.idea
|
||||
.vscode
|
||||
|
|
|
|||
|
|
@ -11,16 +11,16 @@
|
|||
~/.zprofile: zsh/zprofile
|
||||
~/.zshenv: zsh/zshenv
|
||||
~/.zshrc: zsh/zshrc
|
||||
~/.aspell.en.pws: aspell.en.pws
|
||||
~/.vimrc: vimrc
|
||||
~/.mrconfig: mrconfig
|
||||
~/.taskrc: taskrc
|
||||
~/.config/beets/config.yaml:
|
||||
~/Library/Application Support/Code/User/settings.json:
|
||||
create: true
|
||||
path: beets.yaml
|
||||
~/.config/alacritty/alacritty.yml:
|
||||
path: vscode/settings.json
|
||||
~/Library/Application Support/Code/User/keybindings.json:
|
||||
create: true
|
||||
path: alacritty.yml
|
||||
~/.config/Code/User/settings.json:
|
||||
path: vscode/keybindings.json
|
||||
~/Library/Application Support/Code/User/tasks.json:
|
||||
create: true
|
||||
path: vscode_settings.json
|
||||
path: vscode/tasks.json
|
||||
~/Library/Application Support/Code/User/globalStorage/alefragnani.project-manager/projects.json:
|
||||
create: true
|
||||
path: vscode/projects.json
|
||||
|
|
|
|||
97
metabin/generate_vscode_projects.py
Normal file
97
metabin/generate_vscode_projects.py
Normal file
|
|
@ -0,0 +1,97 @@
|
|||
import json
|
||||
|
||||
|
||||
qiime2_projects = [
|
||||
'Keemei',
|
||||
'busywork',
|
||||
'data.qiime2.org',
|
||||
'dev-docs',
|
||||
'discourse-unhandled-tagger',
|
||||
'docs',
|
||||
'environment-files',
|
||||
'galaxy',
|
||||
'library',
|
||||
'logos',
|
||||
'q2-alignment',
|
||||
'q2-composition',
|
||||
'q2-cutadapt',
|
||||
'q2-dada2',
|
||||
'q2-deblur',
|
||||
'q2-demux',
|
||||
'q2-diversity',
|
||||
'q2-diversity-lib',
|
||||
'q2-emperor',
|
||||
'q2-feature-classifier',
|
||||
'q2-feature-table',
|
||||
'q2-fragment-insertion',
|
||||
'q2-gneiss',
|
||||
'q2-longitudinal',
|
||||
'q2-metadata',
|
||||
'q2-phylogeny',
|
||||
'q2-quality-control',
|
||||
'q2-quality-filter',
|
||||
'q2-sample-classifier',
|
||||
'q2-taxa',
|
||||
'q2-types',
|
||||
'q2-vsearch',
|
||||
'q2cli',
|
||||
'q2cwl',
|
||||
'q2galaxy',
|
||||
'q2studio',
|
||||
'q2templates',
|
||||
'q2view',
|
||||
'qiime2',
|
||||
'qiime2.github.io',
|
||||
'template-repo',
|
||||
'view.qiime2.org',
|
||||
'vm-playbooks',
|
||||
'workshop-playbooks',
|
||||
'workshops.qiime2.org',
|
||||
]
|
||||
|
||||
thermokarst_projects = [
|
||||
'ccdb-api',
|
||||
'ccdb-web',
|
||||
'fathm',
|
||||
'tucotuco',
|
||||
]
|
||||
|
||||
cap_lab_projects = [
|
||||
'caporaso-lab.github.io',
|
||||
'pretrained-feature-classifiers',
|
||||
]
|
||||
|
||||
gregcaporaso_projects = [
|
||||
'caporaso-lab-secrets',
|
||||
'qiime2-meta-figures',
|
||||
]
|
||||
|
||||
projects = []
|
||||
|
||||
def record(name, rootPath, group):
|
||||
return {
|
||||
'name': name,
|
||||
'rootPath': rootPath,
|
||||
'paths': [],
|
||||
'group': group,
|
||||
'enabled': True,
|
||||
}
|
||||
|
||||
Record = lambda x, y, z: record(x.lower(), '/'.join([y, x]), z)
|
||||
|
||||
for proj in qiime2_projects:
|
||||
projects.append(Record(proj, '$home/src/qiime2', 'qiime2'))
|
||||
|
||||
for proj in thermokarst_projects:
|
||||
projects.append(Record(proj, '$home/src/thermokarst', 'thermokarst'))
|
||||
|
||||
for proj in cap_lab_projects:
|
||||
projects.append(Record(proj, '$home/src/caporaso-lab', 'caporaso-lab'))
|
||||
|
||||
for proj in gregcaporaso_projects:
|
||||
projects.append(Record(proj, '$home/src/gregcaporaso', 'gregcaporaso'))
|
||||
|
||||
projects.append(record('dotfiles', '$home/.dotfiles', ''))
|
||||
|
||||
with open('vscode/projects.json', 'w') as fh:
|
||||
json.dump(projects, fh, sort_keys=True, indent=4)
|
||||
|
|
@ -1,2 +0,0 @@
|
|||
tasksh 545
|
||||
variants {debug universal} depends_build path:bin/cmake:cmake portdir office/tasksh description {tasksh is a shell command that wraps Taskwarrior commands} homepage http://tasktools.org/projects/tasksh.html depends_run port:task epoch 0 platforms darwin name tasksh depends_lib port:readline maintainers nomaintainer license MIT long_description {{tasksh is a shell command that wraps Taskwarrior commands.} It is intended to provide simpler Taskwarrior access, and add a few new features of its own.} categories office version 1.2.0 revision 1
|
||||
|
|
@ -1 +0,0 @@
|
|||
tasksh 0
|
||||
|
|
@ -1,35 +0,0 @@
|
|||
# -*- coding: utf-8; mode: tcl; tab-width: 4; indent-tabs-mode: nil; c-basic-offset: 4 -*- vim:fenc=utf-8:ft=tcl:et:sw=4:ts=4:sts=4
|
||||
|
||||
PortSystem 1.0
|
||||
PortGroup cmake 1.0
|
||||
|
||||
name tasksh
|
||||
version 1.2.0
|
||||
revision 1
|
||||
categories office
|
||||
platforms darwin
|
||||
license MIT
|
||||
maintainers nomaintainer
|
||||
|
||||
description tasksh is a shell command that wraps Taskwarrior commands
|
||||
long_description ${description}. \
|
||||
It is intended to provide simpler Taskwarrior access, and \
|
||||
add a few new features of its own.
|
||||
|
||||
homepage http://tasktools.org/projects/tasksh.html
|
||||
master_sites http://taskwarrior.org/download/
|
||||
|
||||
checksums sha1 f3171552d30e811227607816e7c9638afd7b6d71 \
|
||||
rmd160 2aa4b5480f3b63a50d79df80bafc275bf2ee2ea7 \
|
||||
sha256 6e42f949bfd7fbdde4870af0e7b923114cc96c4344f82d9d924e984629e21ffd
|
||||
|
||||
patchfiles patch-readline.diff
|
||||
|
||||
post-patch {
|
||||
reinplace -E "s,@@PREFIX@@,${prefix},g" ${worksrcpath}/cmake/Modules/FindReadline.cmake
|
||||
}
|
||||
|
||||
depends_lib port:readline
|
||||
depends_run port:task
|
||||
|
||||
cmake.out_of_source yes
|
||||
|
|
@ -1,42 +0,0 @@
|
|||
--- cmake/Modules/FindReadline.cmake.orig 2015-12-07 11:04:57.000000000 +0100
|
||||
+++ cmake/Modules/FindReadline.cmake 2015-12-07 11:05:32.000000000 +0100
|
||||
@@ -11,11 +11,7 @@
|
||||
# So we look for another one by default
|
||||
IF (APPLE OR FREEBSD)
|
||||
FIND_PATH (READLINE_INCLUDE_DIR NAMES readline/readline.h PATHS
|
||||
- /usr/include/
|
||||
- /sw/include
|
||||
- /opt/local/include
|
||||
- /opt/include
|
||||
- /usr/local/include
|
||||
+ @@PREFIX@@/include
|
||||
NO_DEFAULT_PATH
|
||||
)
|
||||
ENDIF (APPLE OR FREEBSD)
|
||||
@@ -26,11 +22,7 @@
|
||||
# So we look for another one by default
|
||||
IF (APPLE OR FREEBSD)
|
||||
FIND_LIBRARY (READLINE_readline_LIBRARY NAMES readline PATHS
|
||||
- /usr/lib
|
||||
- /sw/lib
|
||||
- /opt/local/lib
|
||||
- /opt/lib
|
||||
- /usr/local/lib
|
||||
+ @@PREFIX@@/lib
|
||||
NO_DEFAULT_PATH
|
||||
)
|
||||
ENDIF (APPLE OR FREEBSD)
|
||||
@@ -39,12 +31,7 @@
|
||||
# Sometimes readline really needs ncurses
|
||||
IF (APPLE OR FREEBSD)
|
||||
FIND_LIBRARY (READLINE_ncurses_LIBRARY NAMES ncurses PATHS
|
||||
- /usr/lib
|
||||
- /sw/lib
|
||||
- /opt/local/lib
|
||||
- /opt/lib
|
||||
- /usr/local/lib
|
||||
- /usr/lib
|
||||
+ @@PREFIX@@/lib
|
||||
NO_DEFAULT_PATH
|
||||
)
|
||||
ENDIF (APPLE OR FREEBSD)
|
||||
|
|
@ -1,10 +0,0 @@
|
|||
# /etc/systemd/system/
|
||||
[Unit]
|
||||
Description=Fix for the suspend issue
|
||||
|
||||
[Service]
|
||||
Type=oneshot
|
||||
ExecStart=/bin/sh -c "echo XHC1 > /proc/acpi/wakeup && echo LID0 > /proc/acpi/wakeup"
|
||||
|
||||
[Install]
|
||||
WantedBy=multi-user.target
|
||||
47
taskrc
47
taskrc
|
|
@ -1,47 +0,0 @@
|
|||
### general
|
||||
|
||||
data.location=~/.task
|
||||
include /Users/matthew/Dropbox/task/taskrc
|
||||
|
||||
### colors
|
||||
|
||||
include /opt/local/share/doc/task/rc/no-color.theme
|
||||
color.overdue=bold white on color2
|
||||
color.active=color0 on color4
|
||||
|
||||
### reports
|
||||
|
||||
# customize `next`
|
||||
report.next.filter=status:pending limit:10 -reading project.not:shopping
|
||||
report.next.columns=id,depends,project,tags,priority,scheduled.relative,due.relative,description.count,urgency
|
||||
report.next.labels=id,depends,project,tags,priority,scheduled,due,description,urgency
|
||||
|
||||
# `full`
|
||||
report.full.description=all open, grouped by project
|
||||
report.full.sort=project+/,urgency
|
||||
report.full.filter=status:pending
|
||||
report.full.columns=id,depends,project,tags,priority,scheduled.relative,due.relative,description.count,urgency
|
||||
report.full.labels=id,depends,project,tags,priority,scheduled,due,description,urgency
|
||||
|
||||
# `inbox`
|
||||
report.inbox.description=Incoming unfiled todos
|
||||
report.inbox.filter=status:pending project:
|
||||
report.inbox.sort=recur+,urgency-
|
||||
report.inbox.columns=id,depends,priority,project,due.relative,description.count,urgency
|
||||
report.inbox.labels=id,depends,priority,project,due.relative,description,urgency
|
||||
|
||||
# tasksh
|
||||
uda.reviewed.type=date
|
||||
uda.reviewed.label=Reviewed
|
||||
report._reviewed.description=Tasksh review report
|
||||
report._reviewed.columns=uuid
|
||||
report._reviewed.sort=reviewed+,modified+
|
||||
report._reviewed.filter=(reviewed.none: or reviewed.before:now-6days) and (+PENDING or +WAITING) and project.not:reading
|
||||
|
||||
### contexts
|
||||
|
||||
# work
|
||||
context.work=project.not:personal
|
||||
|
||||
# personal
|
||||
context.personal=project.not:work
|
||||
|
|
@ -2,6 +2,7 @@
|
|||
setw -g automatic-rename
|
||||
|
||||
set-option -g default-shell /bin/zsh
|
||||
set -g default-command "reattach-to-user-namespace -l ${SHELL}"
|
||||
|
||||
# remap prefix to Control + a
|
||||
set -g prefix C-a
|
||||
|
|
@ -23,9 +24,6 @@ bind c new-window -c "#{pane_current_path}"
|
|||
bind % split-window -h -c "#{pane_current_path}"
|
||||
bind '"' split-window -c "#{pane_current_path}"
|
||||
|
||||
set-window-option -g mode-keys vi
|
||||
|
||||
# hjkl pane traversal
|
||||
set-window-option -g mode-keys vi
|
||||
bind h select-pane -L
|
||||
bind j select-pane -D
|
||||
|
|
@ -48,5 +46,6 @@ set-option -g destroy-unattached 'off'
|
|||
set -g mouse on
|
||||
|
||||
bind-key -T copy-mode-vi 'v' send -X begin-selection
|
||||
bind-key -T copy-mode-vi 'y' send -X copy-selection
|
||||
bind-key -T copy-mode-vi 'r' send -X rectangle-toggle
|
||||
bind-key -T copy-mode-vi 'y' send -X copy-selection-and-cancel
|
||||
bind-key -T copy-mode-vi 'y' send-keys -X copy-pipe-and-cancel 'reattach-to-user-namespace pbcopy'
|
||||
bind-key p paste-buffer
|
||||
|
|
|
|||
138
vimrc
138
vimrc
|
|
@ -1,138 +0,0 @@
|
|||
call plug#begin()
|
||||
" Color/theme integration
|
||||
Plug 'danielwe/base16-vim'
|
||||
" Time-tracking
|
||||
Plug 'wakatime/vim-wakatime'
|
||||
" Python Flake8 support
|
||||
Plug 'nvie/vim-flake8'
|
||||
" Status bar
|
||||
Plug 'vim-airline/vim-airline'
|
||||
" Color/theme integration
|
||||
Plug 'vim-airline/vim-airline-themes'
|
||||
" Git integration
|
||||
Plug 'airblade/vim-gitgutter'
|
||||
" Whitespace handling
|
||||
Plug 'ntpeters/vim-better-whitespace'
|
||||
" Mustache/handlebars support
|
||||
Plug 'mustache/vim-mustache-handlebars'
|
||||
" the silver searcher
|
||||
Plug 'mileszs/ack.vim'
|
||||
" fzf setup
|
||||
Plug 'junegunn/fzf', { 'dir': '~/.fzf', 'do': './install --all' }
|
||||
call plug#end()
|
||||
|
||||
set t_Co=256
|
||||
|
||||
if filereadable(expand("~/.vimrc_background"))
|
||||
let base16colorspace=256
|
||||
source ~/.vimrc_background
|
||||
endif
|
||||
set background=dark
|
||||
|
||||
let g:airline_theme='base16'
|
||||
|
||||
" default encoding
|
||||
set encoding=utf-8
|
||||
|
||||
" Enable file type detection and do language-dependent indenting.
|
||||
filetype plugin indent on
|
||||
|
||||
" turn on syntax highlighting
|
||||
syntax enable
|
||||
syntax on
|
||||
|
||||
" turn on line numbering
|
||||
set number
|
||||
set relativenumber
|
||||
|
||||
" make backspace behave as expected
|
||||
set backspace=indent,eol,start
|
||||
|
||||
" set up whitespace substitutions
|
||||
set list
|
||||
set listchars=tab:▸\ ,extends:>,precedes:<,trail:~
|
||||
|
||||
" highlight current line
|
||||
set cursorline
|
||||
|
||||
" show matching ({[]})
|
||||
set showmatch
|
||||
|
||||
" show a vertical bar on right side of editor
|
||||
set colorcolumn=80
|
||||
|
||||
highlight LineNr ctermfg=DarkGrey
|
||||
|
||||
" number of visual spaces per tab
|
||||
set tabstop=4
|
||||
|
||||
" number of spaces in tab when editing
|
||||
set softtabstop=4
|
||||
|
||||
" tabs are spaces
|
||||
set expandtab
|
||||
|
||||
" self-explanatory
|
||||
set autoindent
|
||||
"
|
||||
" show airline all the time
|
||||
set laststatus=2
|
||||
|
||||
" set up central backups
|
||||
set backup
|
||||
set backupdir=~/.vim-tmp,~/.tmp,~/tmp,/var/tmp,/tmp
|
||||
set backupskip=/tmp/*,/private/tmp/*
|
||||
set directory=~/.vim-tmp,~/.tmp,~/tmp,/var/tmp,/tmp
|
||||
set writebackup
|
||||
|
||||
" change the mapleader from \ to ,
|
||||
let mapleader=" "
|
||||
|
||||
" PEP8 formatting
|
||||
au BufNewFile,BufRead *.py
|
||||
\ set tabstop=4 |
|
||||
\ set softtabstop=4 |
|
||||
\ set shiftwidth=4 |
|
||||
\ set textwidth=79 |
|
||||
\ set expandtab |
|
||||
\ set autoindent |
|
||||
\ set fileformat=unix
|
||||
|
||||
" Everybody else
|
||||
au BufNewFile,BufRead *.js,*.html,*.css
|
||||
\ set tabstop=2 |
|
||||
\ set softtabstop=2 |
|
||||
\ set shiftwidth=2
|
||||
|
||||
" Stop the YAML madness
|
||||
autocmd FileType yaml setl indentkeys-=<:>
|
||||
|
||||
" show open buffers in airline
|
||||
let g:airline#extensions#tabline#enabled = 1
|
||||
|
||||
" show just the filename
|
||||
let g:airline#extensions#tabline#fnamemod = ':t'
|
||||
|
||||
" cycle to next buffer
|
||||
nmap <leader>l :bnext<CR>
|
||||
|
||||
" cycle to previous buffer
|
||||
nmap <leader>h :bprevious<CR>
|
||||
|
||||
" flake8 config
|
||||
let g:flake8_show_in_gutter = 1
|
||||
let g:flake8_error_marker = 'EE'
|
||||
let g:flake8_warning_marker = 'WW'
|
||||
|
||||
" Inform ack.vim that we are actually using the_silver_searcher
|
||||
let g:ackprg = 'ag --vimgrep'
|
||||
|
||||
" relative numbers in normal mode, absolute in insert
|
||||
augroup numbertoggle
|
||||
autocmd!
|
||||
autocmd BufEnter,FocusGained,InsertLeave * set relativenumber
|
||||
autocmd BufLeave,FocusLost,InsertEnter * set norelativenumber
|
||||
augroup END
|
||||
|
||||
" fzf config
|
||||
map <leader><Tab> :FZF<CR>
|
||||
7
vscode/keybindings.json
Normal file
7
vscode/keybindings.json
Normal file
|
|
@ -0,0 +1,7 @@
|
|||
[
|
||||
{
|
||||
"key": "ctrl+w k",
|
||||
"command": "workbench.action.focusActiveEditorGroup",
|
||||
"when": "!editorFocus"
|
||||
}
|
||||
]
|
||||
380
vscode/projects.json
Normal file
380
vscode/projects.json
Normal file
|
|
@ -0,0 +1,380 @@
|
|||
[
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "keemei",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/Keemei"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "busywork",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/busywork"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "data.qiime2.org",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/data.qiime2.org"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "dev-docs",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/dev-docs"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "discourse-unhandled-tagger",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/discourse-unhandled-tagger"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "docs",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/docs"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "environment-files",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/environment-files"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "galaxy",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/galaxy"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "library",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/library"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "logos",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/logos"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-alignment",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-alignment"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-composition",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-composition"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-cutadapt",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-cutadapt"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-dada2",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-dada2"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-deblur",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-deblur"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-demux",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-demux"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-diversity",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-diversity"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-diversity-lib",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-diversity-lib"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-emperor",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-emperor"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-feature-classifier",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-feature-classifier"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-feature-table",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-feature-table"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-fragment-insertion",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-fragment-insertion"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-gneiss",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-gneiss"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-longitudinal",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-longitudinal"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-metadata",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-metadata"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-phylogeny",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-phylogeny"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-quality-control",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-quality-control"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-quality-filter",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-quality-filter"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-sample-classifier",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-sample-classifier"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-taxa",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-taxa"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-types",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-types"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2-vsearch",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2-vsearch"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2cli",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2cli"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2cwl",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2cwl"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2galaxy",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2galaxy"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2studio",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2studio"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2templates",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2templates"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "q2view",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/q2view"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "qiime2",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/qiime2"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "qiime2.github.io",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/qiime2.github.io"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "template-repo",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/template-repo"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "view.qiime2.org",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/view.qiime2.org"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "vm-playbooks",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/vm-playbooks"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "workshop-playbooks",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/workshop-playbooks"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "qiime2",
|
||||
"name": "workshops.qiime2.org",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/qiime2/workshops.qiime2.org"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "thermokarst",
|
||||
"name": "ccdb-api",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/thermokarst/ccdb-api"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "thermokarst",
|
||||
"name": "ccdb-web",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/thermokarst/ccdb-web"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "thermokarst",
|
||||
"name": "fathm",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/thermokarst/fathm"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "thermokarst",
|
||||
"name": "tucotuco",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/thermokarst/tucotuco"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "caporaso-lab",
|
||||
"name": "caporaso-lab.github.io",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/caporaso-lab/caporaso-lab.github.io"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "caporaso-lab",
|
||||
"name": "pretrained-feature-classifiers",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/caporaso-lab/pretrained-feature-classifiers"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "gregcaporaso",
|
||||
"name": "caporaso-lab-secrets",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/gregcaporaso/caporaso-lab-secrets"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "gregcaporaso",
|
||||
"name": "qiime2-meta-figures",
|
||||
"paths": [],
|
||||
"rootPath": "$home/src/gregcaporaso/qiime2-meta-figures"
|
||||
},
|
||||
{
|
||||
"enabled": true,
|
||||
"group": "",
|
||||
"name": "dotfiles",
|
||||
"paths": [],
|
||||
"rootPath": "$home/.dotfiles"
|
||||
}
|
||||
]
|
||||
|
|
@ -1,9 +1,14 @@
|
|||
{
|
||||
"editor.renderWhitespace": "all",
|
||||
"editor.cursorStyle": "block",
|
||||
"editor.minimap.enabled": false,
|
||||
|
||||
"telemetry.enableTelemetry": false,
|
||||
"telemetry.enableCrashReporter": false,
|
||||
|
||||
"workbench.colorTheme": "Base16 Dark Ashes",
|
||||
"terminal.integrated.shell.linux": "/usr/bin/zsh",
|
||||
"window.zoomLevel": 0
|
||||
|
||||
"window.zoomLevel": 0,
|
||||
"window.restoreFullscreen": true,
|
||||
|
||||
"python.jediEnabled": false
|
||||
}
|
||||
10
vscode/tasks.json
Normal file
10
vscode/tasks.json
Normal file
|
|
@ -0,0 +1,10 @@
|
|||
{
|
||||
"version": "2.0.0",
|
||||
"tasks": [
|
||||
{
|
||||
"label": "q2 test",
|
||||
"type": "shell",
|
||||
"command": "make test"
|
||||
}
|
||||
]
|
||||
}
|
||||
|
|
@ -20,8 +20,8 @@ fi
|
|||
# Editors
|
||||
#
|
||||
|
||||
export EDITOR='vim'
|
||||
export VISUAL='vim'
|
||||
export EDITOR='code'
|
||||
export VISUAL='code'
|
||||
export PAGER='less'
|
||||
|
||||
#
|
||||
|
|
@ -84,9 +84,14 @@ path=(
|
|||
|
||||
# miniconda
|
||||
/opt/miniconda3/bin
|
||||
|
||||
# yarn
|
||||
$HOME/.yarn/bin
|
||||
$HOME/.config/yarn/global/node_modules/.bin
|
||||
|
||||
# misc apps
|
||||
/Applications/Postgres.app/Contents/Versions/12/bin/
|
||||
/Applications/Visual\ Studio\ Code.app/Contents/Resources/app/bin/
|
||||
)
|
||||
|
||||
export -U PATH
|
||||
|
|
|
|||
Loading…
Add table
Reference in a new issue