change

8a16ce21 · Lukáš Krupčík · 9a728be3 · 8a16ce21 · 9a728be3 · 9a728be3
Commit 8a16ce21 authored Dec 19, 2016 by Lukáš Krupčík
--- a/README.md
+++ b/README.md
@@ -3,15 +3,3 @@ Převod html dokumentace do md formátu
 -------------------
 **RUČNÍ ČIŠTĚNÍ**
 ------------------
-
-**Stažení  souborů:**
-
-```bash
-html_md.sh -w
-```
-
-**Konverze html do md**
-
-```bash
-html_md.sh  -c
-```
--- a/docs.it4i/css/tty-player.css
+++ b/docs.it4i/css/tty-player.css
-.terminal {
-	font-family: monospace, monospace;
-	cursor: text;
-	line-height: initial;
-}
-
-tty-player {
-	border: 2px solid #285577;
-	border-top: 1px solid #4c7899;
-	margin: 0 auto;
-}
-
-tty-player .title {
-	background: #285577;
-	border-bottom: 1px solid #4c7899;
-	color: #fff;
-	font-family: sans-serif;
-	font-weight: bold;
-	padding: 0.2em;
-	line-height: 1;
-	height: 1em;
-	cursor: default;
-}
-
-tty-player menu {
-	display: none;
-}
-
-tty-player {
-	display: inline-block;
-	position: relative;
-}
-
-tty-player:not([controls]) tty-player-controls {
-	display: none;
-}
-
-tty-player-poster {
-	/* XXX: <video> has an overlay with play button if [controls] over the poster *image*, but here we have an overlay with play button regardless. Perhaps specifying a poster currentTime or script might work? */
-	background: rgba(53, 47, 47, 0.5);
-	opacity: 0.5;
-	transition: opacity 0.2s linear;
-	background-repeat: no-repeat;
-	background-position: center;
-	background-image: url("data:image/svg+xml,%3C?xml%20version='1.0'%20encoding='UTF-8'%20standalone='no'?%3E%3Csvg%20xmlns='http://www.w3.org/2000/svg'%20width='66'%20height='66'%3E%3Cfilter%20id='f'%3E%3CfeColorMatrix%20type='matrix'%20values='0%200%200%200%200%200%200%200%200%200%200%200%200%200%200%200%200%200%20.5%200'/%3E%3CfeGaussianBlur%20result='r'%20stdDeviation='2'/%3E%3CfeComposite%20in='SourceGraphic'%20in2='r'/%3E%3C/filter%3E%3Cpath%20fill='%23ddd'%20stroke='%23ccc'%20stroke-width='1'%20d='M33,5.5A27.5,27.5%200%200%200%205.5,33%2027.5,27.5%200%200%200%2033,60.5%2027.5,27.5%200%200%200%2060.5,33%2027.5,27.5%200%200%200%2033,5.5Zm-9.5,13%2025,14.5-25,14.5%200,-29z'%20filter='url(%23f)'/%3E%3C/svg%3E");
-	position: absolute;
-	top: 0;
-	left: 0;
-	right: 0;
-	bottom: 0;
-}
-
-tty-player[controls] tty-player-poster {
-	bottom: 28px;
-}
-
-tty-player:hover tty-player-poster {
-	opacity: 1;
-}
-
-tty-player-controls {
-	position: absolute;
-	left: 0;
-	right: 0;
-	bottom: 0;
-	background: rgba(53, 47, 47, 0.5);
-	opacity: 0;
-	display: flex;
-	flex-direction: row;
-	transition: opacity 0.2s linear;
-	cursor: default;
-}
-
-/* Browsers tend to show the controls when a <video> ends, too; I, however, am not doing this for now at least as the controls will overlap with what is often the most important part of the terminal (the bottom). For this reason, I haven’t hooked up any support for that either, only showing controls persistently when the poster is up. */
-tty-player-controls.poster,
-tty-player:hover tty-player-controls {
-	opacity: 1;
-}
-
-tty-player-controls input[type=range], tty-player-controls button {
-	margin: 0;
-	padding: 0;
-	border: none;
-	background: none;
-	font: inherit;
-	line-height: inherit;
-	-moz-appearance: none;
-	-webkit-appearance: none;
-}
-
-tty-player-controls button {
-	padding: 0;
-	background: none;
-	opacity: 0.75;
-	flex: 0 1 auto;
-	line-height: 1;
-	width: 28px;
-	height: 28px;
-}
-
-tty-player-controls button:hover {
-	color: #777;
-	opacity: 1;
-}
-
-tty-player-controls input[type=range] {
-	flex: 1;
-	height: 8px;
-	margin: 10px 5px;
-}
-
-tty-player-controls button {
-	background-repeat: no-repeat;
-	background-position: center;
-}
-
-tty-player-controls button.play {
-	background-image: url("data:image/svg+xml,%3C?xml%20version='1.0'%20encoding='UTF-8'%20standalone='no'?%3E%3Csvg%20xmlns='http://www.w3.org/2000/svg'%20width='14'%20height='16'%3E%3Cpath%20fill='%23ccc'%20d='M0,0%200,16%2014,8Z'/%3E%3C/svg%3E");
-}
-
-tty-player-controls button.pause {
-	background-image: url("data:image/svg+xml,%3C?xml%20version='1.0'%20encoding='UTF-8'%20standalone='no'?%3E%3Csvg%20xmlns='http://www.w3.org/2000/svg'%20width='14'%20height='16'%3E%3Cpath%20fill='%23ccc'%20d='M1,0L1,16L5,16L5,0L0,0zM9,0L9,16L13,16L13,0L9,0z'/%3E%3C/svg%3E");
-}
-
-tty-player-controls input[type=range]:focus {
-	box-shadow: none;
-	outline: none;
-}
-
-tty-player-controls input[type=range]::-moz-range-track,
-tty-player-controls input[type=range]::-moz-range-thumb,
-tty-player-controls input[type=range]::-moz-range-progress {
-	border-radius: 4px;
-	height: 8px;
-}
-
-tty-player-controls input[type=range]::-moz-range-track {
-	background: rgba(255, 255, 255, 0.5);
-}
-
-tty-player-controls input[type=range]::-moz-range-thumb {
-	-moz-appearance: none;
-	width: 0;
-	background: transparent;
-	border: 0;
-	border-radius: 0;
-	box-shadow: 0;
-	position: relative;
-}
-
-tty-player-controls input[type=range]::-moz-range-progress {
-	background: #fff;
-}
-
-input[type=range] {
-	overflow: hidden;
-}
-
-tty-player-controls input[type=range]::-webkit-slider-runnable-track {
-	-webkit-appearance: none;
-	height: 8px;
-	background: rgba(255, 255, 255, 0.5);
-	//border-radius: 4px;
-}
-
-tty-player-controls input[type=range]::-webkit-slider-thumb:before {
-	position: absolute;
-	top: 0;
-	right: 50%;
-	left: -9999px;
-	background: #fff;
-	content: '';
-	height: 8px;
-	pointer-events: none;
-}
-
-tty-player-controls input[type=range]::-webkit-slider-thumb {
-	-webkit-appearance: none;
-	width: 0;
-	height: 0;
-	position: relative;
-}
-
-/* I have not altered IE’s styles because I feel them already satisfactory */
-
-tty-player-controls .current-time {
-	position: absolute;
-	color: #ddd;
-	background: #888;
-	font-family: sans-serif;
-	font-size: 12px;
-	display: block;
-	box-shadow: 0 1px rgba(0, 0, 0, 0.5), 0 1px 2px rgba(0, 0, 0, 0.5), inset 0 1px rgba(255, 255, 255, 0.2);
-	padding: 0 5px;
-	line-height: 16px;
-	border-radius: 4px;
-	top: -7px;
-}
-
-tty-player-controls .current-time::after {
-	content: "";
-	position: absolute;
-	width: 8px;
-	height: 8px;
-	background: linear-gradient(-45deg, #888 50%, transparent 50%);
-	box-shadow: 1px 1px rgba(0, 0, 0, 0.5), 1px 1px 1px rgba(0, 0, 0, 0.5);
-	bottom: -3px;
-	left: 50%;
-	margin-left: -5px;
-	transform: rotate(45deg);
-}
-
-tty-player-controls .duration {
-	font-family: sans-serif;
-	font-size: 12px;
-	color: #999;
-	line-height: 18px;
-	padding: 5px;
-}
--- a/docs.it4i/js/term.min.js
+++ b/docs.it4i/js/term.min.js
--- a/docs.it4i/js/tty-player.js
+++ b/docs.it4i/js/tty-player.js
--- a/docs.it4i/js/webcomponents-lite.min.js
+++ b/docs.it4i/js/webcomponents-lite.min.js
--- a/docs.it4i/new.md
+++ b/docs.it4i/new.md
-|Date and time|Title and description|
-|---|---|
-| 13.07.2016 15:40|[MATLAB 2015b](https://docs.it4i.cz/whats-new/news-feed/matlab-2015b "MATLAB 2015b")|
-| 08.07.2016 00:00|[Vampir installed](https://docs.it4i.cz/whats-new/news-feed/vampir-installed "Vampir installed")|
-| 30.06.2016 00:00|[Allinea Tools updated to 6.0.6](https://docs.it4i.cz/whats-new/news-feed/allinea-tools-updated-to-6-0.6 "Allinea Tools updated to 6.0.6")|
-| 30.06.2016 00:00|[Intel VTune Amplifier support for Xeon Phi on Salomon](https://docs.it4i.cz/whats-new/news-feed/intel-vtune-amplifier-support-for-xeon-phi-on-salomon "Intel VTune Amplifier support for Xeon Phi on Salomon")|
-| 23.06.2016 00:00|[New method to execute parallel MATLAB jobs](https://docs.it4i.cz/whats-new/news-feed/new-method-to-execute-parallel-matlab-jobs "New method to execute parallel MATLAB jobs")|
-| 08.06.2016 00:00|[New versions of Allinea Forge and Performance Reports](https://docs.it4i.cz/whats-new/news-feed/new-versions-of-allinea-forge-and-performance-version "New versions of Allinea Forge and Performance Reports")|
-| 06.06.2016 00:00|[Intel VTune is working](https://docs.it4i.cz/whats-new/news-feed/intel-vtune-is-working "Intel VTune is working")|
-| 31.05.2016 14:00|[Intel Parallel Studio 2016 update 3](https://docs.it4i.cz/whats-new/news-feed/intel-parallel-studio-2016-update-3 "Intel Parallel Studio 2016 update 3")|
-| 05.05.2016 15:58|[ANSYS 17.0 Installed](https://docs.it4i.cz/whats-new/news-feed/ansys-17-0-installed "ANSYS 17.0 Installed")|
-| 29.04.2016 14:25|[Allinea Forge 6.0](https://docs.it4i.cz/whats-new/news-feed/allinea-forge-6.0 "Allinea Forge 6.0")|
-| 29.04.2016 14:23|[Issue with Intel MPI 4.1.1 on Salomon](https://docs.it4i.cz/whats-new/news-feed/issue-with-intel-mpi-4-1-1-on-salomon "Issue with Intel MPI 4.1.1 on Salomon")|
-| 22.04.2016 14:35|[New modules for Parallel programming in modern Fortran course](https://docs.it4i.cz/whats-new/news-feed/new-modules-for-parallel-programming-in-modern-fortran-course "New modules for Parallel programming in modern Fortran course")|
-| 13.04.2016 14:20|[Octave updated to 4.0.1 on Anselm](https://docs.it4i.cz/whats-new/news-feed/octave-updated-to-4-0-1-on-anselm "Octave updated to 4.0.1 on Anselm")|
-| 01.04.2016 00:00|[Allinea Forge 5.1 installed on Anselm](https://docs.it4i.cz/whats-new/news-feed/allinea-forge-5-1-installed-on-anselm "Allinea Forge 5.1 installed on Anselm")|
-| 07.03.2016 00:00|[Cuda 7.5 is now installed on Anselm](https://docs.it4i.cz/whats-new/news-feed/cuda-7-5-is-now-installed-on-anselm "Cuda 7.5 is now installed on Anselm")|
-| 24.02.2016 00:00|[Added basic documentation for Intel Advisor and Intel Inspector](https://docs.it4i.cz/whats-new/news-feed/added-basic-documentation-for-intel-advisor-and-intel-inspector "Added basic documentation for Intel Advisor and Intel Inspector")|
-| 24.02.2016 00:00|[Anselm downtime has been extended to Feb 26th.](https://docs.it4i.cz/whats-new/news-feed/anselm-downtime-has-been-extended-to-feb-26th "Anselm downtime has been extended to Feb 26th.")|
-| 11.02.2016 00:00|[Allinea Forge documentation updated](https://docs.it4i.cz/whats-new/news-feed/allinea-forge-documentation-updated "Allinea Forge documentation updated")|
-| 09.02.2016 00:00|[New bioinformatic tools installed: FastQC/0.11.3, GATK/3.5-Java-1.7.0\_79, picard/2.1.0, SAMtools/1.3-foss-2015g, SnpEff/4.1\_G, Trimmomatic/0.35-Java-1.7.0\_79](https://docs.it4i.cz/whats-new/news-feed/new-bioinformatic-tools-installed-fastqc-0-11-3-gatk-3-5-java-1-7-0_79-picard-2-1-0-samtools-1-3-foss-2015g-snpeff-4-1_g-trimmomatic-0-35-java-1-7.0_79 "New bioinformatic tools installed: FastQC/0.11.3, GATK/3.5-Java-1.7.0_79, picard/2.1.0, SAMtools/1.3-foss-2015g, SnpEff/4.1_G, Trimmomatic/0.35-Java-1.7.0_79")
-| 26.01.2016 00:00|[Salomon PBS changes](https://docs.it4i.cz/whats-new/news-feed/salomon-pbs-changes "Salomon PBS changes")|
-| 15.01.2016 00:00|[Capacity computing updated for Salomon](https://docs.it4i.cz/whats-new/news-feed/capacity-computing-updated-for-salomon "Capacity computing updated for Salomon")|
-| 13.01.2016 00:00|[Mono 4.2.2 and MPI.NET 1.2 on Salomon](https://docs.it4i.cz/whats-new/news-feed/mono-4-2-2-and-mpi-net-1-2-on-salomon "Mono 4.2.2 and MPI.NET 1.2 on Salomon")|
--- a/docs.it4i/src/anselm/login_anselm.screen
+++ b/docs.it4i/src/anselm/login_anselm.screen
-$ termrec login_anselm.ttyrec
-
-# login to Anselm cluster from local linux machine
-
-ssh -i /home/local/.ssh/id_rsa rus016@login1.anselm.it4i.cz
-
-# Welcome to Anselm supercomputer cluster
-
-# run htop command
-
-htop
-
-# logout from the cluster
-
-logout
--- a/docs.it4i/src/anselm/login_anselm.ttyrec
+++ b/docs.it4i/src/anselm/login_anselm.ttyrec
--- a/docs.it4i/src/anselm/login_anselm.ttyrec~
+++ b/docs.it4i/src/anselm/login_anselm.ttyrec~
--- a/docs.it4i/src/anselm/modules_anselm.screen
+++ b/docs.it4i/src/anselm/modules_anselm.screen
-termrec -e 'ssh -i /home/local/.ssh/id_rsa rus016@anselm.it4i.cz' modules_anselm.ttyrec
-
-# Working with modules
-
-# get the current version of Python
-$ python --version
-
-# run Python
-python
-
-# right now is version 2.6.6
-
-# search all available Python's modules
-module avail |& grep Python/
-
-# for example let's choose a new module Python 3.5.1
-$ module load Python/3.5.1-intel-2016.01
-
-# and now get the current version of Python
-$ python --version
-
-# run Python
-python
-
-# that's correct, version 3.5.1
-
-# now turn back to old version you have to unload module
-$ module unload Python/3.5.1-intel-2016.01
-
-$ python --version
-
-# Python version 2.6.6 is ready to use now
-
--- a/docs.it4i/src/anselm/modules_anselm.ttyrec
+++ b/docs.it4i/src/anselm/modules_anselm.ttyrec
--- a/docs.it4i/src/anselm/transfer_scp_anselm.screen
+++ b/docs.it4i/src/anselm/transfer_scp_anselm.screen
-$ termrec transfer_scp_anselm.ttyrec
-
-# File transfer from local machine to Anselm cluster
-
-# create local directory with files
-$ mkdir folder
-$ cd folder
-$ touch test_file.scp
-
-$ mkdir local_dir
-$ touch local_dir/file.txt
-
-# using scp command to transfer a file to the cluster
-$ scp test_file.scp rus016@anselm.it4i.cz:/home/rus016/test_file.scp
-
-# successfully uploaded to the cluster
-
-# using scp command to transfer a directory to the cluster
-$ scp -r local_dir rus016@anselm.it4i.cz:/home/rus016/local_dir
-
-# successfully uploaded to the cluster
-
-# login to Anselm cluster and check all transfered files
-ssh -i /home/local/.ssh/id_rsa rus016@anselm.it4i.cz
-
-$ls -l
-
-# yes, all files and directory are stored in home directory on the cluster
-
-
--- a/docs.it4i/src/anselm/transfer_scp_anselm.ttyrec
+++ b/docs.it4i/src/anselm/transfer_scp_anselm.ttyrec
--- a/docs.it4i/src/anselm/transfer_sftp_anselm.screen
+++ b/docs.it4i/src/anselm/transfer_sftp_anselm.screen
-$ termrec transfer_sftp_anselm.ttyrec
-
-# File transfer from local machine to Anselm cluster
-
-# using sftp command
-$ touch test_file.sftp
-$ sftp -o IdentityFile=/home/local/.ssh/id_rsa rus016@anselm.it4i.cz
-
-# list of all commands - help or ?
-sftp> help
-
-# display remote working directory on Anselm cluster
-sftp> pwd
-# display remote directory listing on Anselm cluster
-sftp> ls -la
-# display statistics for remote directory
-sftp> df -h
-
-# display local working directory on local linux machine
-sftp> lpwd
-# display local directory listing on local linux machine
-sftp> lls -la
-
-# now we can upload a file from linux machine to Anselm cluster
-sftp> put test_file.sftp
-
-# and then check if successfully uploaded
-sftp> ls -l
-
-# of course we can download a file from the cluster
-sftp> get demo.tar.gz
-
-# and check in local directory
-sftp> lls -l
-
-# delete local file from sftp
-sftp>!rm demo.tar.gz
-
-# quit sftp
-sftp> exit
-
-# login to Anselm cluster and check all transfered files
-ssh -i /home/local/.ssh/id_rsa rus016@anselm.it4i.cz
-
-$ls -l
-
-# yes, all files are stored in home directory on the cluster
-
--- a/docs.it4i/src/anselm/transfer_sftp_anselm.ttyrec
+++ b/docs.it4i/src/anselm/transfer_sftp_anselm.ttyrec
--- a/docs.it4i/src/login_anselm.ttyrec
+++ b/docs.it4i/src/login_anselm.ttyrec
--- a/docs.it4i/src/salomon/login_salomon.screen
+++ b/docs.it4i/src/salomon/login_salomon.screen
-$ termrec login_salomon.ttyrec
-
-# login to Salomon cluster from local linux machine
-
-ssh -i /home/local/.ssh/id_rsa dd-16-12-13@salomon.it4i.cz
-
-# Welcome to Salomon supercomputer cluster
-
-# run htop command
-
-htop
-
-# logout from the cluster
-
-logout
-
--- a/docs.it4i/src/salomon/login_salomon.ttyrec
+++ b/docs.it4i/src/salomon/login_salomon.ttyrec
--- a/docs.it4i/src/salomon/modules_salomon.screen
+++ b/docs.it4i/src/salomon/modules_salomon.screen
-$ termrec -e 'ssh -i /home/local/.ssh/id_rsa dd-16-12-13@salomon.it4i.cz' modules_salomonn.ttyrec
-
-# Working with modules
-
-# get the current version of Python
-$ python --version
-
-# run Python
-python
-
-# right now is version 2.6.6
-
-# search all available Python's modules
-module avail |& grep Python/
-
-# for example let's choose a new module Python 3.5.1
-$ module load Python/3.5.1-intel-2016.01
-
-# and now get the current version of Python
-$ python --version
-
-# run Python
-python
-
-# that's correct, version 3.5.1
-
-# now turn back to old version you have to unload module
-$ module unload Python/3.5.1-intel-2016.01
-
-$ python --version
-
-# Python version 2.6.6 is ready to use now
-
--- a/docs.it4i/src/salomon/modules_salomonn.ttyrec
+++ b/docs.it4i/src/salomon/modules_salomonn.ttyrec