programmingCourseDIFA/Lesson_AF_07_command_line_applications.html at master · UniboDIFABiophysics/programmingCourseDIFA · GitHub

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<html>
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<title>Lesson_AF_07_command_line_applications</title><script src="https://cdnjs.cloudflare.com/ajax/libs/require.js/2.1.10/require.min.js"></script>


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}

/*-----------------------------------------------------------------------------
| Copyright (c) Jupyter Development Team.
| Copyright (c) 2014-2017, PhosphorJS Contributors
|
| Distributed under the terms of the BSD 3-Clause License.
|
| The full license is in the file LICENSE, distributed with this software.
|----------------------------------------------------------------------------*/

/* <DEPRECATED> */
.p-DockPanel, /* </DEPRECATED> */
.lm-DockPanel {
  z-index: 0;
}

/* <DEPRECATED> */
.p-DockPanel-widget, /* </DEPRECATED> */
.lm-DockPanel-widget {
  z-index: 0;
}

/* <DEPRECATED> */
.p-DockPanel-tabBar, /* </DEPRECATED> */
.lm-DockPanel-tabBar {
  z-index: 1;
}

/* <DEPRECATED> */
.p-DockPanel-handle, /* </DEPRECATED> */
.lm-DockPanel-handle {
  z-index: 2;
}

/* <DEPRECATED> */
.p-DockPanel-handle.p-mod-hidden, /* </DEPRECATED> */
.lm-DockPanel-handle.lm-mod-hidden {
  display: none !important;
}

/* <DEPRECATED> */
.p-DockPanel-handle:after, /* </DEPRECATED> */
.lm-DockPanel-handle:after {
  position: absolute;
  top: 0;
  left: 0;
  width: 100%;
  height: 100%;
  content: '';
}

/* <DEPRECATED> */
.p-DockPanel-handle[data-orientation='horizontal'],
/* </DEPRECATED> */
.lm-DockPanel-handle[data-orientation='horizontal'] {
  cursor: ew-resize;
}

/* <DEPRECATED> */
.p-DockPanel-handle[data-orientation='vertical'],
/* </DEPRECATED> */
.lm-DockPanel-handle[data-orientation='vertical'] {
  cursor: ns-resize;
}

/* <DEPRECATED> */
.p-DockPanel-handle[data-orientation='horizontal']:after,
/* </DEPRECATED> */
.lm-DockPanel-handle[data-orientation='horizontal']:after {
  left: 50%;
  min-width: 8px;
  transform: translateX(-50%);
}

/* <DEPRECATED> */
.p-DockPanel-handle[data-orientation='vertical']:after,
/* </DEPRECATED> */
.lm-DockPanel-handle[data-orientation='vertical']:after {
  top: 50%;
  min-height: 8px;
  transform: translateY(-50%);
}

/* <DEPRECATED> */
.p-DockPanel-overlay, /* </DEPRECATED> */
.lm-DockPanel-overlay {
  z-index: 3;
  box-sizing: border-box;
  pointer-events: none;
}

/* <DEPRECATED> */
.p-DockPanel-overlay.p-mod-hidden, /* </DEPRECATED> */
.lm-DockPanel-overlay.lm-mod-hidden {
  display: none !important;
}

/*-----------------------------------------------------------------------------
| Copyright (c) Jupyter Development Team.
| Copyright (c) 2014-2017, PhosphorJS Contributors
|
| Distributed under the terms of the BSD 3-Clause License.
|
| The full license is in the file LICENSE, distributed with this software.
|----------------------------------------------------------------------------*/

/* <DEPRECATED> */
.p-Menu, /* </DEPRECATED> */
.lm-Menu {
  z-index: 10000;
  position: absolute;
  white-space: nowrap;
  overflow-x: hidden;
  overflow-y: auto;
  outline: none;
  -webkit-user-select: none;
  -moz-user-select: none;
  -ms-user-select: none;
  user-select: none;
}

/* <DEPRECATED> */
.p-Menu-content, /* </DEPRECATED> */
.lm-Menu-content {
  margin: 0;
  padding: 0;
  display: table;
  list-style-type: none;
}

/* <DEPRECATED> */
.p-Menu-item, /* </DEPRECATED> */
.lm-Menu-item {
  display: table-row;
}

/* <DEPRECATED> */
.p-Menu-item.p-mod-hidden,
.p-Menu-item.p-mod-collapsed,
/* </DEPRECATED> */
.lm-Menu-item.lm-mod-hidden,
.lm-Menu-item.lm-mod-collapsed {
  display: none !important;
}

/* <DEPRECATED> */
.p-Menu-itemIcon,
.p-Menu-itemSubmenuIcon,
/* </DEPRECATED> */
.lm-Menu-itemIcon,
.lm-Menu-itemSubmenuIcon {
  display: table-cell;
  text-align: center;
}

/* <DEPRECATED> */
.p-Menu-itemLabel, /* </DEPRECATED> */
.lm-Menu-itemLabel {
  display: table-cell;
  text-align: left;
}

/* <DEPRECATED> */
.p-Menu-itemShortcut, /* </DEPRECATED> */
.lm-Menu-itemShortcut {
  display: table-cell;
  text-align: right;
}

/*-----------------------------------------------------------------------------
| Copyright (c) Jupyter Development Team.
| Copyright (c) 2014-2017, PhosphorJS Contributors
|
| Distributed under the terms of the BSD 3-Clause License.
|
| The full license is in the file LICENSE, distributed with this software.
|----------------------------------------------------------------------------*/

/* <DEPRECATED> */
.p-MenuBar, /* </DEPRECATED> */
.lm-MenuBar {
  outline: none;
  -webkit-user-select: none;
  -moz-user-select: none;
  -ms-user-select: none;
  user-select: none;
}

/* <DEPRECATED> */
.p-MenuBar-content, /* </DEPRECATED> */
.lm-MenuBar-content {
  margin: 0;
  padding: 0;
  display: flex;
  flex-direction: row;
  list-style-type: none;
}

/* <DEPRECATED> */
.p--MenuBar-item, /* </DEPRECATED> */
.lm-MenuBar-item {
  box-sizing: border-box;
}

/* <DEPRECATED> */
.p-MenuBar-itemIcon,
.p-MenuBar-itemLabel,
/* </DEPRECATED> */
.lm-MenuBar-itemIcon,
.lm-MenuBar-itemLabel {
  display: inline-block;
}

/*-----------------------------------------------------------------------------
| Copyright (c) Jupyter Development Team.
| Copyright (c) 2014-2017, PhosphorJS Contributors
|
| Distributed under the terms of the BSD 3-Clause License.
|
| The full license is in the file LICENSE, distributed with this software.
|----------------------------------------------------------------------------*/

/* <DEPRECATED> */
.p-ScrollBar, /* </DEPRECATED> */
.lm-ScrollBar {
  display: flex;
  -webkit-user-select: none;
  -moz-user-select: none;
  -ms-user-select: none;
  user-select: none;
}

/* <DEPRECATED> */
.p-ScrollBar[data-orientation='horizontal'],
/* </DEPRECATED> */
.lm-ScrollBar[data-orientation='horizontal'] {
  flex-direction: row;
}

/* <DEPRECATED> */
.p-ScrollBar[data-orientation='vertical'],
/* </DEPRECATED> */
.lm-ScrollBar[data-orientation='vertical'] {
  flex-direction: column;
}

/* <DEPRECATED> */
.p-ScrollBar-button, /* </DEPRECATED> */
.lm-ScrollBar-button {
  box-sizing: border-box;
  flex: 0 0 auto;
}

/* <DEPRECATED> */
.p-ScrollBar-track, /* </DEPRECATED> */
.lm-ScrollBar-track {
  box-sizing: border-box;
  position: relative;
  overflow: hidden;
  flex: 1 1 auto;
}

/* <DEPRECATED> */
.p-ScrollBar-thumb, /* </DEPRECATED> */
.lm-ScrollBar-thumb {
  box-sizing: border-box;
  position: absolute;
}

/*-----------------------------------------------------------------------------
| Copyright (c) Jupyter Development Team.
| Copyright (c) 2014-2017, PhosphorJS Contributors
|
| Distributed under the terms of the BSD 3-Clause License.
|
| The full license is in the file LICENSE, distributed with this software.
|----------------------------------------------------------------------------*/

/* <DEPRECATED> */
.p-SplitPanel-child, /* </DEPRECATED> */
.lm-SplitPanel-child {
  z-index: 0;
}

/* <DEPRECATED> */
.p-SplitPanel-handle, /* </DEPRECATED> */
.lm-SplitPanel-handle {
  z-index: 1;
}

/* <DEPRECATED> */
.p-SplitPanel-handle.p-mod-hidden, /* </DEPRECATED> */
.lm-SplitPanel-handle.lm-mod-hidden {
  display: none !important;
}

/* <DEPRECATED> */
.p-SplitPanel-handle:after, /* </DEPRECATED> */
.lm-SplitPanel-handle:after {
  position: absolute;
  top: 0;
  left: 0;
  width: 100%;
  height: 100%;
  content: '';
}

/* <DEPRECATED> */
.p-SplitPanel[data-orientation='horizontal'] > .p-SplitPanel-handle,
/* </DEPRECATED> */
.lm-SplitPanel[data-orientation='horizontal'] > .lm-SplitPanel-handle {
  cursor: ew-resize;
}

/* <DEPRECATED> */
.p-SplitPanel[data-orientation='vertical'] > .p-SplitPanel-handle,
/* </DEPRECATED> */
.lm-SplitPanel[data-orientation='vertical'] > .lm-SplitPanel-handle {
  cursor: ns-resize;
}

/* <DEPRECATED> */
.p-SplitPanel[data-orientation='horizontal'] > .p-SplitPanel-handle:after,
/* </DEPRECATED> */
.lm-SplitPanel[data-orientation='horizontal'] > .lm-SplitPanel-handle:after {
  left: 50%;
  min-width: 8px;
  transform: translateX(-50%);
}

/* <DEPRECATED> */
.p-SplitPanel[data-orientation='vertical'] > .p-SplitPanel-handle:after,
/* </DEPRECATED> */
.lm-SplitPanel[data-orientation='vertical'] > .lm-SplitPanel-handle:after {
  top: 50%;
  min-height: 8px;
  transform: translateY(-50%);
}

/*-----------------------------------------------------------------------------
| Copyright (c) Jupyter Development Team.
| Copyright (c) 2014-2017, PhosphorJS Contributors
|
| Distributed under the terms of the BSD 3-Clause License.
|
| The full license is in the file LICENSE, distributed with this software.
|----------------------------------------------------------------------------*/

/* <DEPRECATED> */
.p-TabBar, /* </DEPRECATED> */
.lm-TabBar {
  display: flex;
  -webkit-user-select: none;
  -moz-user-select: none;
  -ms-user-select: none;
  user-select: none;
}

/* <DEPRECATED> */
.p-TabBar[data-orientation='horizontal'], /* </DEPRECATED> */
.lm-TabBar[data-orientation='horizontal'] {
  flex-direction: row;
  align-items: flex-end;
}

/* <DEPRECATED> */
.p-TabBar[data-orientation='vertical'], /* </DEPRECATED> */
.lm-TabBar[data-orientation='vertical'] {
  flex-direction: column;
  align-items: flex-end;
}

/* <DEPRECATED> */
.p-TabBar-content, /* </DEPRECATED> */
.lm-TabBar-content {
  margin: 0;
  padding: 0;
  display: flex;
  flex: 1 1 auto;
  list-style-type: none;
}

/* <DEPRECATED> */
.p-TabBar[data-orientation='horizontal'] > .p-TabBar-content,
/* </DEPRECATED> */
.lm-TabBar[data-orientation='horizontal'] > .lm-TabBar-content {
  flex-direction: row;
}

/* <DEPRECATED> */
.p-TabBar[data-orientation='vertical'] > .p-TabBar-content,
/* </DEPRECATED> */
.lm-TabBar[data-orientation='vertical'] > .lm-TabBar-content {
  flex-direction: column;
}

/* <DEPRECATED> */
.p-TabBar-tab, /* </DEPRECATED> */
.lm-TabBar-tab {
  display: flex;
  flex-direction: row;
  box-sizing: border-box;
  overflow: hidden;
  touch-action: none; /* Disable native Drag/Drop */
}

/* <DEPRECATED> */
.p-TabBar-tabIcon,
.p-TabBar-tabCloseIcon,
/* </DEPRECATED> */
.lm-TabBar-tabIcon,
.lm-TabBar-tabCloseIcon {
  flex: 0 0 auto;
}

/* <DEPRECATED> */
.p-TabBar-tabLabel, /* </DEPRECATED> */
.lm-TabBar-tabLabel {
  flex: 1 1 auto;
  overflow: hidden;
  white-space: nowrap;
}

.lm-TabBar-tabInput {
  user-select: all;
  width: 100%;
  box-sizing: border-box;
}

/* <DEPRECATED> */
.p-TabBar-tab.p-mod-hidden, /* </DEPRECATED> */
.lm-TabBar-tab.lm-mod-hidden {
  display: none !important;
}

.lm-TabBar-addButton.lm-mod-hidden {
  display: none !important;
}

/* <DEPRECATED> */
.p-TabBar.p-mod-dragging .p-TabBar-tab, /* </DEPRECATED> */
.lm-TabBar.lm-mod-dragging .lm-TabBar-tab {
  position: relative;
}

/* <DEPRECATED> */
.p-TabBar.p-mod-dragging[data-orientation='horizontal'] .p-TabBar-tab,
/* </DEPRECATED> */
.lm-TabBar.lm-mod-dragging[data-orientation='horizontal'] .lm-TabBar-tab {
  left: 0;
  transition: left 150ms ease;
}

/* <DEPRECATED> */
.p-TabBar.p-mod-dragging[data-orientation='vertical'] .p-TabBar-tab,
/* </DEPRECATED> */
.lm-TabBar.lm-mod-dragging[data-orientation='vertical'] .lm-TabBar-tab {
  top: 0;
  transition: top 150ms ease;
}

/* <DEPRECATED> */
.p-TabBar.p-mod-dragging .p-TabBar-tab.p-mod-dragging,
/* </DEPRECATED> */
.lm-TabBar.lm-mod-dragging .lm-TabBar-tab.lm-mod-dragging {
  transition: none;
}

.lm-TabBar-tabLabel .lm-TabBar-tabInput {
  user-select: all;
  width: 100%;
  box-sizing: border-box;
  background: inherit;
}

/*-----------------------------------------------------------------------------
| Copyright (c) Jupyter Development Team.
| Copyright (c) 2014-2017, PhosphorJS Contributors
|
| Distributed under the terms of the BSD 3-Clause License.
|
| The full license is in the file LICENSE, distributed with this software.
|----------------------------------------------------------------------------*/

/* <DEPRECATED> */
.p-TabPanel-tabBar, /* </DEPRECATED> */
.lm-TabPanel-tabBar {
  z-index: 1;
}

/* <DEPRECATED> */
.p-TabPanel-stackedPanel, /* </DEPRECATED> */
.lm-TabPanel-stackedPanel {
  z-index: 0;
}

/*-----------------------------------------------------------------------------
| Copyright (c) Jupyter Development Team.
| Copyright (c) 2014-2017, PhosphorJS Contributors
|
| Distributed under the terms of the BSD 3-Clause License.
|
| The full license is in the file LICENSE, distributed with this software.
|----------------------------------------------------------------------------*/

@charset "UTF-8";
html{
  -webkit-box-sizing:border-box;
          box-sizing:border-box; }

*,
*::before,
*::after{
  -webkit-box-sizing:inherit;
          box-sizing:inherit; }

body{
  font-size:14px;
  font-weight:400;
  letter-spacing:0;
  line-height:1.28581;
  text-transform:none;
  color:#182026;
  font-family:-apple-system, "BlinkMacSystemFont", "Segoe UI", "Roboto", "Oxygen", "Ubuntu", "Cantarell", "Open Sans", "Helvetica Neue", "Icons16", sans-serif; }

p{
  margin-bottom:10px;
  margin-top:0; }

small{
  font-size:12px; }

strong{
  font-weight:600; }

::-moz-selection{
  background:rgba(125, 188, 255, 0.6); }

::selection{
  background:rgba(125, 188, 255, 0.6); }
.bp3-heading{
  color:#182026;
  font-weight:600;
  margin:0 0 10px;
  padding:0; }
  .bp3-dark .bp3-heading{
    color:#f5f8fa; }

h1.bp3-heading, .bp3-running-text h1{
  font-size:36px;
  line-height:40px; }

h2.bp3-heading, .bp3-running-text h2{
  font-size:28px;
  line-height:32px; }

h3.bp3-heading, .bp3-running-text h3{
  font-size:22px;
  line-height:25px; }

h4.bp3-heading, .bp3-running-text h4{
  font-size:18px;
  line-height:21px; }

h5.bp3-heading, .bp3-running-text h5{
  font-size:16px;
  line-height:19px; }

h6.bp3-heading, .bp3-running-text h6{
  font-size:14px;
  line-height:16px; }
.bp3-ui-text{
  font-size:14px;
  font-weight:400;
  letter-spacing:0;
  line-height:1.28581;
  text-transform:none; }

.bp3-monospace-text{
  font-family:monospace;
  text-transform:none; }

.bp3-text-muted{
  color:#5c7080; }
  .bp3-dark .bp3-text-muted{
    color:#a7b6c2; }

.bp3-text-disabled{
  color:rgba(92, 112, 128, 0.6); }
  .bp3-dark .bp3-text-disabled{
    color:rgba(167, 182, 194, 0.6); }

.bp3-text-overflow-ellipsis{
  overflow:hidden;