Last updated: 2019-10-17
Checks: 7 0
Knit directory: listerlab/
This reproducible R Markdown analysis was created with workflowr (version 1.4.0). The Checks tab describes the reproducibility checks that were applied when the results were created. The Past versions tab lists the development history.
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| File | Version | Author | Date | Message |
|---|---|---|---|---|
| Rmd | e538315 | davetang | 2019-10-17 | wflow_publish(“analysis/uwa_vm.Rmd”) |
| html | 54b39db | davetang | 2019-10-15 | Build site. |
| Rmd | 01de06d | davetang | 2019-10-15 | wflow_publish(files = c(“analysis/index.Rmd”, “analysis/stiletto.Rmd”, “analysis/uwa_vm.Rmd”)) |
IP (subject to change, so check with Hayden): 146.118.65.205
Operating system.
cat /etc/os-release
NAME="Ubuntu"
VERSION="18.04.3 LTS (Bionic Beaver)"
ID=ubuntu
ID_LIKE=debian
PRETTY_NAME="Ubuntu 18.04.3 LTS"
VERSION_ID="18.04"
HOME_URL="https://www.ubuntu.com/"
SUPPORT_URL="https://help.ubuntu.com/"
BUG_REPORT_URL="https://bugs.launchpad.net/ubuntu/"
PRIVACY_POLICY_URL="https://www.ubuntu.com/legal/terms-and-policies/privacy-policy"
VERSION_CODENAME=bionic
UBUNTU_CODENAME=bionicCPU.
lscpu
Architecture: x86_64
CPU op-mode(s): 32-bit, 64-bit
Byte Order: Little Endian
CPU(s): 16
On-line CPU(s) list: 0-15
Thread(s) per core: 1
Core(s) per socket: 1
Socket(s): 16
NUMA node(s): 1
Vendor ID: AuthenticAMD
CPU family: 21
Model: 2
Model name: AMD Opteron 63xx class CPU
Stepping: 0
CPU MHz: 2299.998
BogoMIPS: 4599.99
Virtualization: AMD-V
Hypervisor vendor: KVM
Virtualization type: full
L1d cache: 64K
L1i cache: 64K
L2 cache: 512K
L3 cache: 16384K
NUMA node0 CPU(s): 0-15
Flags: fpu vme de pse tsc msr pae mce cx8 apic sep mtrr pge mca cmov pat pse36 clflush mmx fxsr sse sse2 syscall nx mmxext fxsr_opt pdpe1gb lm rep_good nopl cpuid extd_apicid tsc_known_freq pni pclmulqdq ssse3 fma cx16 sse4_1 sse4_2 x2apic popcnt tsc_deadline_timer aes xsave avx f16c hypervisor lahf_lm cmp_legacy svm cr8_legacy abm sse4a misalignsse 3dnowprefetch osvw xop fma4 tbm ssbd ibpb vmmcall tsc_adjust bmi1 virt_ssbd aratMemory.
free -h
total used free shared buff/cache available
Mem: 47G 523M 42G 1.0M 4.1G 46G
Swap: 0B 0B 0BThere is not much disk space, so please delete files that are not in use. Larger files should be stored in /data/01.
df -h
Filesystem Size Used Avail Use% Mounted on
udev 24G 0 24G 0% /dev
tmpfs 4.8G 740K 4.8G 1% /run
/dev/vda1 39G 25G 15G 63% /
tmpfs 24G 0 24G 0% /dev/shm
tmpfs 5.0M 0 5.0M 0% /run/lock
tmpfs 24G 0 24G 0% /sys/fs/cgroup
/dev/vda15 105M 3.4M 102M 4% /boot/efi
/dev/mapper/biodata.vg-01.lv 118G 21G 92G 19% /data/01
tmpfs 4.8G 0 4.8G 0% /run/user/1002
sessionInfo()R version 3.6.1 (2019-07-05)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Mojave 10.14.6
Matrix products: default
BLAS: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRblas.0.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.6/Resources/lib/libRlapack.dylib
locale:
[1] en_AU.UTF-8/en_AU.UTF-8/en_AU.UTF-8/C/en_AU.UTF-8/en_AU.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] forcats_0.4.0 stringr_1.4.0 dplyr_0.8.3 purrr_0.3.2
[5] readr_1.3.1 tidyr_1.0.0 tibble_2.1.3 ggplot2_3.2.1
[9] tidyverse_1.2.1
loaded via a namespace (and not attached):
[1] Rcpp_1.0.2 cellranger_1.1.0 pillar_1.4.2 compiler_3.6.1
[5] git2r_0.26.1 workflowr_1.4.0 tools_3.6.1 zeallot_0.1.0
[9] digest_0.6.21 lubridate_1.7.4 jsonlite_1.6 evaluate_0.14
[13] lifecycle_0.1.0 nlme_3.1-141 gtable_0.3.0 lattice_0.20-38
[17] pkgconfig_2.0.3 rlang_0.4.0 cli_1.1.0 rstudioapi_0.10
[21] yaml_2.2.0 haven_2.1.1 xfun_0.10 withr_2.1.2
[25] xml2_1.2.2 httr_1.4.1 knitr_1.25 hms_0.5.1
[29] generics_0.0.2 fs_1.3.1 vctrs_0.2.0 rprojroot_1.3-2
[33] grid_3.6.1 tidyselect_0.2.5 glue_1.3.1 R6_2.4.0
[37] readxl_1.3.1 rmarkdown_1.16 modelr_0.1.5 magrittr_1.5
[41] whisker_0.4 backports_1.1.5 scales_1.0.0 htmltools_0.4.0
[45] rvest_0.3.4 assertthat_0.2.1 colorspace_1.4-1 stringi_1.4.3
[49] lazyeval_0.2.2 munsell_0.5.0 broom_0.5.2 crayon_1.3.4