automated commit by that big argon thingy

Author: Zachary J Gilliam

code/core/environment.yml

@@ -0,0 +1,192 @@
+name: act-newer
+channels:
+  - conda-forge
+  - defaults
+  - https://repo.anaconda.com/pkgs/main
+  - https://repo.anaconda.com/pkgs/r
+dependencies:
+  - _libgcc_mutex=0.1=main
+  - _openmp_mutex=5.1=1_gnu
+  - _r-mutex=1.0.0=anacondar_1
+  - _sysroot_linux-64_curr_repodata_hack=3=haa98f57_10
+  - binutils_impl_linux-64=2.40=h5293946_0
+  - binutils_linux-64=2.40.0=hc2dff05_2
+  - blas=1.0=openblas
+  - bottleneck=1.4.2=py313hf0014fa_0
+  - brotli-python=1.0.9=py313h6a678d5_9
+  - bwidget=1.9.16=h9eba36c_0
+  - bzip2=1.0.8=h5eee18b_6
+  - c-ares=1.19.1=h5eee18b_0
+  - ca-certificates=2025.6.15=hbd8a1cb_0
+  - cairo=1.16.0=hb05425b_5
+  - certifi=2025.6.15=pyhd8ed1ab_0
+  - charset-normalizer=3.3.2=pyhd3eb1b0_0
+  - contourpy=1.3.1=py313hdb19cb5_0
+  - curl=8.12.1=h251f7ec_0
+  - cycler=0.11.0=pyhd3eb1b0_0
+  - cyrus-sasl=2.1.28=h52b45da_1
+  - expat=2.7.1=h6a678d5_0
+  - fontconfig=2.14.1=h55d465d_3
+  - fonttools=4.55.3=py313h5eee18b_0
+  - freetype=2.13.3=h4a9f257_0
+  - fribidi=1.0.10=h7b6447c_0
+  - gcc_impl_linux-64=11.2.0=h1234567_1
+  - gcc_linux-64=11.2.0=h5c386dc_2
+  - gfortran_impl_linux-64=11.2.0=h1234567_1
+  - gfortran_linux-64=11.2.0=hc2dff05_2
+  - gh=2.74.2=h76a2195_0
+  - glib=2.78.4=h6a678d5_0
+  - glib-tools=2.78.4=h6a678d5_0
+  - graphite2=1.3.14=h295c915_1
+  - gxx_impl_linux-64=11.2.0=h1234567_1
+  - gxx_linux-64=11.2.0=hc2dff05_2
+  - harfbuzz=10.2.0=hf296adc_0
+  - icu=73.1=h6a678d5_0
+  - idna=3.7=py313h06a4308_0
+  - jpeg=9e=h5eee18b_3
+  - kernel-headers_linux-64=3.10.0=h57e8cba_10
+  - kiwisolver=1.4.8=py313h6a678d5_0
+  - krb5=1.20.1=h143b758_1
+  - lcms2=2.16=h92b89f2_1
+  - ld_impl_linux-64=2.40=h12ee557_0
+  - lerc=4.0.0=h6a678d5_0
+  - libabseil=20250127.0=cxx17_h6a678d5_0
+  - libblas=3.9.0=1_h86c2bf4_netlib
+  - libcups=2.4.2=h2d74bed_1
+  - libcurl=8.12.1=hc9e6f67_0
+  - libdeflate=1.22=h5eee18b_0
+  - libedit=3.1.20230828=h5eee18b_0
+  - libev=4.33=h7f8727e_1
+  - libffi=3.4.4=h6a678d5_1
+  - libgcc=15.1.0=h767d61c_2
+  - libgcc-devel_linux-64=11.2.0=h1234567_1
+  - libgcc-ng=15.1.0=h69a702a_2
+  - libgfortran-ng=11.2.0=h00389a5_1
+  - libgfortran5=11.2.0=h1234567_1
+  - libglib=2.78.4=hdc74915_0
+  - libgomp=15.1.0=h767d61c_2
+  - libiconv=1.16=h5eee18b_3
+  - liblapack=3.9.0=5_h92ddd45_netlib
+  - libmpdec=4.0.0=h5eee18b_0
+  - libnghttp2=1.57.0=h2d74bed_0
+  - libopenblas=0.3.29=ha39b09d_0
+  - libpng=1.6.39=h5eee18b_0
+  - libpq=17.4=hdbd6064_0
+  - libprotobuf=5.29.3=h3cdef7c_1
+  - libssh2=1.11.1=h251f7ec_0
+  - libstdcxx-devel_linux-64=11.2.0=h1234567_1
+  - libstdcxx-ng=11.2.0=h1234567_1
+  - libtiff=4.7.0=hde9077f_0
+  - libuuid=1.41.5=h5eee18b_0
+  - libwebp-base=1.3.2=h5eee18b_1
+  - libxcb=1.17.0=h9b100fa_0
+  - libxkbcommon=1.9.1=h69220b7_0
+  - libxml2=2.13.8=hfdd30dd_0
+  - lz4-c=1.9.4=h6a678d5_1
+  - make=4.2.1=h1bed415_1
+  - matplotlib=3.10.0=py313h06a4308_1
+  - matplotlib-base=3.10.0=py313h68cf311_1
+  - mysql=8.4.0=h721767e_2
+  - narwhals=1.31.0=py313h06a4308_1
+  - ncurses=6.4=h6a678d5_0
+  - numexpr=2.10.1=py313hd28fd6d_0
+  - numpy=2.2.5=py313h3d1d590_0
+  - numpy-base=2.2.5=py313hc428782_0
+  - openjpeg=2.5.2=h0d4d230_1
+  - openldap=2.6.4=h42fbc30_0
+  - openssl=3.5.0=h7b32b05_1
+  - packaging=24.2=py313h06a4308_0
+  - pandas=2.2.3=py313h6a678d5_0
+  - pango=1.50.7=h0fee60c_1
+  - pcre2=10.42=hebb0a14_1
+  - pillow=11.1.0=py313hac6e08b_1
+  - pip=25.1=pyhc872135_2
+  - pixman=0.40.0=h7f8727e_1
+  - plotly=6.0.1=py313h7040dfc_0
+  - pthread-stubs=0.3=h0ce48e5_1
+  - pyparsing=3.2.0=py313h06a4308_0
+  - pyqt=6.7.1=py313h6a678d5_1
+  - pyqt6-sip=13.9.1=py313h5eee18b_1
+  - pysocks=1.7.1=py313h06a4308_0
+  - python=3.13.2=hf623796_100_cp313
+  - python-dateutil=2.9.0post0=py313h06a4308_2
+  - python-tzdata=2025.2=pyhd3eb1b0_0
+  - python_abi=3.13=0_cp313
+  - pytz=2024.1=py313h06a4308_0
+  - qtbase=6.7.3=hdaa5aa8_0
+  - qtdeclarative=6.7.3=h6a678d5_0
+  - qtsvg=6.7.3=he621ea3_0
+  - qttools=6.7.3=h80c7b02_0
+  - qtwebchannel=6.7.3=h6a678d5_0
+  - qtwebsockets=6.7.3=h6a678d5_0
+  - r-base=4.3.1=h8399a1e_1
+  - r-bit=4.0.5=r43h76d94ec_0
+  - r-bit64=4.0.5=r43h76d94ec_0
+  - r-cli=3.6.1=r43h884c59f_0
+  - r-codetools=0.2_19=r43h6115d3f_0
+  - r-cpp11=0.4.6=r43h6115d3f_0
+  - r-crayon=1.5.2=r43h6115d3f_0
+  - r-data.table=1.14.8=r43h76d94ec_0
+  - r-doparallel=1.0.17=r43h6115d3f_0
+  - r-fansi=1.0.5=r43h76d94ec_0
+  - r-foreach=1.5.2=r43h6115d3f_0
+  - r-getopt=1.20.4=r43h6115d3f_0
+  - r-ggir=3.0_0=r43h6115d3f_0
+  - r-glue=1.6.2=r43h76d94ec_0
+  - r-hexview=0.3_4=r43h142f84f_0
+  - r-hms=1.1.3=r43h6115d3f_0
+  - r-ineq=0.2_13=r43h142f84f_0
+  - r-iterators=1.0.14=r43h6115d3f_0
+  - r-lattice=0.22_5=r43h76d94ec_0
+  - r-lifecycle=1.0.3=r43h142f84f_0
+  - r-magrittr=2.0.3=r43h76d94ec_0
+  - r-mass=7.3_60=r43h76d94ec_0
+  - r-matrix=1.6_1.1=r43h76d94ec_0
+  - r-mgcv=1.9_3=r43h2ae2be5_0
+  - r-nlme=3.1_163=r43h640688f_0
+  - r-optparse=1.7.3=r43h142f84f_0
+  - r-pillar=1.9.0=r43h6115d3f_0
+  - r-pkgconfig=2.0.3=r43h6115d3f_0
+  - r-prettyunits=1.2.0=r43h142f84f_0
+  - r-progress=1.2.2=r43h142f84f_0
+  - r-r6=2.5.1=r43h6115d3f_0
+  - r-rlang=1.1.1=r43h884c59f_0
+  - r-signal=0.7_7=r43h640688f_0
+  - r-tibble=3.2.1=r43h76d94ec_0
+  - r-tidyselect=1.2.0=r43h6115d3f_0
+  - r-tzdb=0.4.0=r43h884c59f_0
+  - r-unisensr=0.3.3=r43h6115d3f_0
+  - r-utf8=1.2.4=r43h76d94ec_0
+  - r-vctrs=0.6.4=r43h884c59f_0
+  - r-vroom=1.6.4=r43h884c59f_0
+  - r-withr=2.5.1=r43h6115d3f_0
+  - r-xml=3.99_0.17=r43h76d94ec_0
+  - r-zoo=1.8_12=r43h76d94ec_0
+  - readline=8.2=h5eee18b_0
+  - requests=2.32.3=py313h06a4308_1
+  - seaborn=0.13.2=py313h06a4308_3
+  - setuptools=72.1.0=py313h06a4308_0
+  - sip=6.10.0=py313h6a678d5_0
+  - six=1.17.0=py313h06a4308_0
+  - sqlite=3.45.3=h5eee18b_0
+  - sysroot_linux-64=2.17=h57e8cba_10
+  - tk=8.6.14=h993c535_1
+  - tktable=2.10=h3d55465_1
+  - tornado=6.5.1=py313h5eee18b_0
+  - tzdata=2025b=h04d1e81_0
+  - urllib3=2.3.0=py313h06a4308_0
+  - wheel=0.45.1=py313h06a4308_0
+  - xcb-util=0.4.1=h5eee18b_2
+  - xcb-util-cursor=0.1.5=h5eee18b_0
+  - xcb-util-image=0.4.0=h5eee18b_2
+  - xcb-util-renderutil=0.3.10=h5eee18b_0
+  - xkeyboard-config=2.44=h5eee18b_0
+  - xorg-libx11=1.8.12=h9b100fa_1
+  - xorg-libxau=1.0.12=h9b100fa_0
+  - xorg-libxdmcp=1.1.5=h9b100fa_0
+  - xorg-xorgproto=2024.1=h5eee18b_1
+  - xz=5.6.4=h5eee18b_1
+  - zlib=1.2.13=h5eee18b_1
+  - zstd=1.5.6=hc292b87_0
+prefix: /home/vosslab-svc/.conda/envs/act-newer
+

code/logs/argon-err.log

@@ -0,0 +1,2 @@
+From https://github.com/HBCLab/boost-act
+ * branch            main       -> FETCH_HEAD

code/logs/argon.log

@@ -0,0 +1,2 @@
+Already up-to-date.
+Fatal error: cannot open file '/Users/zjgilliam/boost-act/tests/sleep/sleep_act.R': No such file or directory

code/logs/myjob.err

@@ -5,9 +5,9 @@
 import sys
 
 class Pipe:
-    INT_DIR = '/mnt/nfs/lss/vosslabhpc/Projects/BOOST/InterventionStudy/3-experiment/data/act-int-test'
-    OBS_DIR = '/mnt/nfs/lss/vosslabhpc/Projects/BOOST/ObservationalStudy/3-experiment/data/act-obs-test'
-    RDSS_DIR = '/mnt/nfs/rdss/vosslab/Repositories/Accelerometer_Data'
+    INT_DIR = '/Shared/vosslabhpc/Projects/BOOST/InterventionStudy/3-experiment/data/act-int-test'
+    OBS_DIR = '/Shared/vosslabhpc/Projects/BOOST/ObservationalStudy/3-experiment/data/act-obs-test'
+    RDSS_DIR = '/Shared/vosslab/Repositories/Accelerometer_Data'
     def __init__(self, token, daysago):
         self.token = token
         self.daysago = daysago

code/logs/myjob.out

@@ -0,0 +1,27 @@
+#!/bin/bash
+#$ -pe smp 16
+#$ -cwd
+#$ -q VOSSHBC
+#$ -m bea
+#$ -M [email protected]
+#$ -o $HOME/boost-act/code/logs/myjob.out  # Standard output log
+#$ -e $HOME/boost-act/code/logs/myjob.err  # Standard error log
+
+OMP_NUM_THREADS=10
+
+# Initialize Conda
+source $HOME/miniconda3/etc/profile.d/conda.sh
+
+# Pull changes ff only to push later yk?
+git pull --ff-only origin main
+
+# Activate that env 
+conda activate act-newer
+
+# Run dat script
+Rscript $HOME/boost-act/tests/sleep/sleep_act.R
+
+# Push dem changes
+git add .
+git commit -m "automated commit by that big argon thingy"
+git push