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ElfPy (Experimental lab fits in Python)

A collection of Python modules with a command line interface to (semi-)automatically evaluate and fit curves from experimental measurements of mainly biological tissues.

The purpose of elfpy is to make the evaluation of mechanical measurements of soft biological tissues easier and to enable a (semi-)automatic determination of mechanical properties of these kinds of tissues.

Installation

Install from sources:

git clone https://github.com/rc/elfpy.git
cd elfpy
pip install .

Update existing git repository (deletes all uncommitted local changes!):

git fetch origin
git reset --hard origin/master
pip install .

Usage

  1. Convert data files to a suitable form using elfpy-convert.

    Run:

    elfpy-convert -h

    to get help.

  2. Analyze the converted data using elfpy-process.

    Run:

    elfpy-process -h

    to get help:

    elfpy-process -l

    to see all available commands and:

    elfpy-process -d <command name>

    to get help on a command.

    Example command file:

    # Beginning of example command file.
# Filters.
smooth_strain
smooth_stress
select_cycle, -1
get_ultimate_values
-----
# Plot commands.
use_markers, 0
plot_stress_strain, 1, 0, 'stress-strain'
mark_ultimate_values, 1, 1
-----
# Save commands.
save_ultimate_values
save_figure, 1
# End of example command file.

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Experimental lab fits in Python

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, 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Add copy buttons to all 
 blocks\n(function() {\n function addCopyButtons() {\n document.querySelectorAll('pre code').forEach(function(codeBlock) {\n if (codeBlock.parentElement.hasAttribute('data-copy-added')) return;\n codeBlock.parentElement.setAttribute('data-copy-added', 'true');\n \n var btn = document.createElement('button');\n btn.textContent = 'Copy';\n btn.style.cssText = 'position:absolute;top:4px;right:4px;padding:2px 8px;font-size:11px;background:#4ecdc4;border:none;border-radius:4px;color:#1a1a2e;cursor:pointer;opacity:0.7;transition:opacity 0.2s;';\n btn.onmouseover = function() { this.style.opacity = '1'; };\n btn.onmouseout = function() { this.style.opacity = '0.7'; };\n btn.onclick = function() {\n navigator.clipboard.writeText(codeBlock.textContent).then(function() {\n btn.textContent = 'Copied!';\n setTimeout(function() { btn.textContent = 'Copy'; }, 1500);\n });\n };\n codeBlock.parentElement.style.position = 'relative';\n codeBlock.parentElement.appendChild(btn);\n });\n }\n \n addCopyButtons();\n \n // Re-run on dynamic content\n var observer = new MutationObserver(addCopyButtons);\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Add Copy Buttons to Code Blocks");
}
} catch(__e) { console.warn('[Userscript:Add Copy Buttons to Code Blocks]', __e); }
})();
(function(){
try {
var __m = "github.com";
var __re = new RegExp('^' + "github\\.com" + '

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Repository files navigation
ElfPy (Experimental lab fits in Python)
A collection of Python modules with a command line interface to
(semi-)automatically evaluate and fit curves from experimental measurements of
mainly biological tissues.
The purpose of elfpy is to make the evaluation of mechanical measurements of
soft biological tissues easier and to enable a (semi-)automatic determination
of mechanical properties of these kinds of tissues.
Installation
Install from sources:
git clone https://github.com/rc/elfpy.git
cd elfpy
pip install .

Update existing git repository (deletes all uncommitted local changes!):
git fetch origin
git reset --hard origin/master
pip install .

Usage
  1. Convert data files to a suitable form using elfpy-convert.
    Run:
    elfpy-convert -h

    to get help.
  2. Analyze the converted data using elfpy-process.
    Run:
    elfpy-process -h

    to get help:
    elfpy-process -l

    to see all available commands and:
    elfpy-process -d <command name>

    to get help on a command.
    Example command file:
    # Beginning of example command file.
# Filters.
smooth_strain
smooth_stress
select_cycle, -1
get_ultimate_values
-----
# Plot commands.
use_markers, 0
plot_stress_strain, 1, 0, 'stress-strain'
mark_ultimate_values, 1, 1
-----
# Save commands.
save_ultimate_values
save_figure, 1
# End of example command file.

About
Experimental lab fits in Python
Resources
Readme
BSD-3-Clause license
Activity
Stars
1 star
Watchers
1 watching
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0 forks
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Force GitHub README to respect dark mode\n(function() {\n var style = document.createElement('style');\n style.textContent = '\n .markdown-body {\n color-scheme: dark light;\n }\n .markdown-body pre { background: #161b22 !important; }\n .markdown-body code { background: rgba(110, 118, 129, 0.4) !important; }\n .markdown-body table th, .markdown-body table td { border-color: #30363d !important; }\n .markdown-body img { background: #0d1117; }\n .markdown-body blockquote { border-left-color: #8b949e; }\n .markdown-body hr { border-color: #30363d; }\n ';\n document.head.appendChild(style);\n})();", "GitHub Dark Mode README Fix");
}
} catch(__e) { console.warn('[Userscript:GitHub Dark Mode README Fix]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

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Repository files navigation
ElfPy (Experimental lab fits in Python)
A collection of Python modules with a command line interface to
(semi-)automatically evaluate and fit curves from experimental measurements of
mainly biological tissues.
The purpose of elfpy is to make the evaluation of mechanical measurements of
soft biological tissues easier and to enable a (semi-)automatic determination
of mechanical properties of these kinds of tissues.
Installation
Install from sources:
git clone https://github.com/rc/elfpy.git
cd elfpy
pip install .

Update existing git repository (deletes all uncommitted local changes!):
git fetch origin
git reset --hard origin/master
pip install .

Usage
  1. Convert data files to a suitable form using elfpy-convert.
    Run:
    elfpy-convert -h

    to get help.
  2. Analyze the converted data using elfpy-process.
    Run:
    elfpy-process -h

    to get help:
    elfpy-process -l

    to see all available commands and:
    elfpy-process -d <command name>

    to get help on a command.
    Example command file:
    # Beginning of example command file.
# Filters.
smooth_strain
smooth_stress
select_cycle, -1
get_ultimate_values
-----
# Plot commands.
use_markers, 0
plot_stress_strain, 1, 0, 'stress-strain'
mark_ultimate_values, 1, 1
-----
# Save commands.
save_ultimate_values
save_figure, 1
# End of example command file.

About
Experimental lab fits in Python
Resources
Readme
BSD-3-Clause license
Activity
Stars
1 star
Watchers
1 watching
Forks
0 forks
Report repository
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Highlight search terms from Google/DuckDuckGo/Bing referrer\n(function() {\n var ref = document.referrer;\n var terms = [];\n \n if (ref.includes('google.com') || ref.includes('duckduckgo.com') || ref.includes('bing.com')) {\n var url = new URL(ref);\n var q = url.searchParams.get('q') || url.searchParams.get('p');\n if (q) {\n terms = q.split(/\\s+/).filter(function(t) { return t.length > 2; });\n }\n }\n \n if (terms.length === 0) return;\n \n var style = document.createElement('style');\n style.textContent = '.userscript-highlight { background: #fbbf24; color: #1a1a2e; padding: 1px 3px; border-radius: 2px; }';\n document.head.appendChild(style);\n \n function highlight(node) {\n if (node.nodeType === 3) { // text node\n var text = node.textContent;\n var found = false;\n terms.forEach(function(term) {\n var regex = new RegExp('(' + term.replace(/[.*+?^${}()|[\\]\\\\]/g, '\\\\') + ')', 'gi');\n if (regex.test(text)) {\n found = true;\n var frag = document.createDocumentFragment();\n var parts = text.split(regex);\n parts.forEach(function(part, i) {\n if (i % 2 === 0) {\n frag.appendChild(document.createTextNode(part));\n } else {\n var span = document.createElement('span');\n span.className = 'userscript-highlight';\n span.textContent = part;\n frag.appendChild(span);\n }\n });\n node.parentNode.replaceChild(frag, node);\n }\n });\n } else if (node.nodeType === 1 && node.childNodes) { // element\n var skipTags = ['SCRIPT', 'STYLE', 'NOSCRIPT', 'TEXTAREA', 'INPUT', 'SELECT'];\n if (!skipTags.includes(node.tagName)) {\n Array.from(node.childNodes).forEach(highlight);\n }\n }\n }\n \n highlight(document.body);\n \n // Re-highlight on dynamic content\n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1 || node.nodeType === 3) highlight(node);\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Highlight Search Terms");
}
} catch(__e) { console.warn('[Userscript:Highlight Search Terms]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

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Repository files navigation
ElfPy (Experimental lab fits in Python)
A collection of Python modules with a command line interface to
(semi-)automatically evaluate and fit curves from experimental measurements of
mainly biological tissues.
The purpose of elfpy is to make the evaluation of mechanical measurements of
soft biological tissues easier and to enable a (semi-)automatic determination
of mechanical properties of these kinds of tissues.
Installation
Install from sources:
git clone https://github.com/rc/elfpy.git
cd elfpy
pip install .

Update existing git repository (deletes all uncommitted local changes!):
git fetch origin
git reset --hard origin/master
pip install .

Usage
  1. Convert data files to a suitable form using elfpy-convert.
    Run:
    elfpy-convert -h

    to get help.
  2. Analyze the converted data using elfpy-process.
    Run:
    elfpy-process -h

    to get help:
    elfpy-process -l

    to see all available commands and:
    elfpy-process -d <command name>

    to get help on a command.
    Example command file:
    # Beginning of example command file.
# Filters.
smooth_strain
smooth_stress
select_cycle, -1
get_ultimate_values
-----
# Plot commands.
use_markers, 0
plot_stress_strain, 1, 0, 'stress-strain'
mark_ultimate_values, 1, 1
-----
# Save commands.
save_ultimate_values
save_figure, 1
# End of example command file.

About
Experimental lab fits in Python
Resources
Readme
BSD-3-Clause license
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Watchers
1 watching
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Strip utm_, fbclid, gclid, etc. from all links on page\n(function() {\n var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content',\n 'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid',\n 'ref', 'ref_src', 'source', 'medium', 'campaign'];\n \n function cleanUrl(url) {\n try {\n var u = new URL(url, window.location.origin);\n var changed = false;\n trackingParams.forEach(function(p) {\n if (u.searchParams.has(p)) {\n u.searchParams.delete(p);\n changed = true;\n }\n });\n return changed ? u.toString() : url;\n } catch (e) {\n return url;\n }\n }\n \n function cleanLinks() {\n document.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n \n cleanLinks();\n \n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1) {\n if (node.tagName === 'A') cleanLinks();\n node.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Remove Tracking Parameters from Links");
}
} catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); }
})();
(function(){
try {
var __m = "youtube.com";
var __re = new RegExp('^' + "youtube\\.com" + '

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Repository files navigation
ElfPy (Experimental lab fits in Python)
A collection of Python modules with a command line interface to
(semi-)automatically evaluate and fit curves from experimental measurements of
mainly biological tissues.
The purpose of elfpy is to make the evaluation of mechanical measurements of
soft biological tissues easier and to enable a (semi-)automatic determination
of mechanical properties of these kinds of tissues.
Installation
Install from sources:
git clone https://github.com/rc/elfpy.git
cd elfpy
pip install .

Update existing git repository (deletes all uncommitted local changes!):
git fetch origin
git reset --hard origin/master
pip install .

Usage
  1. Convert data files to a suitable form using elfpy-convert.
    Run:
    elfpy-convert -h

    to get help.
  2. Analyze the converted data using elfpy-process.
    Run:
    elfpy-process -h

    to get help:
    elfpy-process -l

    to see all available commands and:
    elfpy-process -d <command name>

    to get help on a command.
    Example command file:
    # Beginning of example command file.
# Filters.
smooth_strain
smooth_stress
select_cycle, -1
get_ultimate_values
-----
# Plot commands.
use_markers, 0
plot_stress_strain, 1, 0, 'stress-strain'
mark_ultimate_values, 1, 1
-----
# Save commands.
save_ultimate_values
save_figure, 1
# End of example command file.

About
Experimental lab fits in Python
Resources
Readme
BSD-3-Clause license
Activity
Stars
1 star
Watchers
1 watching
Forks
0 forks
Report repository
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Auto-enable theater mode on YouTube\n(function() {\n function tryTheater() {\n var btn = document.querySelector('button[aria-label=\"Theater mode\"], ytd-player #player button[title=\"Theater mode\"]');\n if (btn && !btn.classList.contains('activated')) {\n btn.click();\n }\n }\n \n // Try immediately\n tryTheater();\n \n // Try after navigation (SPA)\n var lastUrl = location.href;\n setInterval(function() {\n if (location.href !== lastUrl) {\n lastUrl = location.href;\n setTimeout(tryTheater, 500);\n }\n }, 1000);\n \n // Also try on player load\n var observer = new MutationObserver(tryTheater);\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "YouTube Theater Mode Default");
}
} catch(__e) { console.warn('[Userscript:YouTube Theater Mode Default]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

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setup.py
Repository files navigation
ElfPy (Experimental lab fits in Python)
A collection of Python modules with a command line interface to
(semi-)automatically evaluate and fit curves from experimental measurements of
mainly biological tissues.
The purpose of elfpy is to make the evaluation of mechanical measurements of
soft biological tissues easier and to enable a (semi-)automatic determination
of mechanical properties of these kinds of tissues.
Installation
Install from sources:
git clone https://github.com/rc/elfpy.git
cd elfpy
pip install .

Update existing git repository (deletes all uncommitted local changes!):
git fetch origin
git reset --hard origin/master
pip install .

Usage
  1. Convert data files to a suitable form using elfpy-convert.
    Run:
    elfpy-convert -h

    to get help.
  2. Analyze the converted data using elfpy-process.
    Run:
    elfpy-process -h

    to get help:
    elfpy-process -l

    to see all available commands and:
    elfpy-process -d <command name>

    to get help on a command.
    Example command file:
    # Beginning of example command file.
# Filters.
smooth_strain
smooth_stress
select_cycle, -1
get_ultimate_values
-----
# Plot commands.
use_markers, 0
plot_stress_strain, 1, 0, 'stress-strain'
mark_ultimate_values, 1, 1
-----
# Save commands.
save_ultimate_values
save_figure, 1
# End of example command file.

About
Experimental lab fits in Python
Resources
Readme
BSD-3-Clause license
Activity
Stars
1 star
Watchers
1 watching
Forks
0 forks
Report repository
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Remove or un-stick sticky/fixed headers that block content\n(function() {\n function unstick() {\n document.querySelectorAll('header, nav, [role=\"banner\"], .header, .navbar, .sticky, .fixed-top, [style*=\"position: fixed\"], [style*=\"position:sticky\"]').forEach(function(el) {\n if (el.style.position === 'fixed' || el.style.position === 'sticky' || \n getComputedStyle(el).position === 'fixed' || getComputedStyle(el).position === 'sticky') {\n el.style.position = 'static';\n el.style.top = 'auto';\n el.style.zIndex = 'auto';\n }\n });\n }\n \n unstick();\n \n var observer = new MutationObserver(unstick);\n observer.observe(document.body, { childList: true, subtree: true, attributes: true, attributeFilter: ['style', 'class'] });\n})();", "Kill Sticky Headers");
}
} catch(__e) { console.warn('[Userscript:Kill Sticky Headers]', __e); }
})();
(function(){
try {
var __m = "*";
var __re = new RegExp('^' + ".*" + '

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pyproject.toml
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setup.cfg
setup.py
setup.py
Repository files navigation
ElfPy (Experimental lab fits in Python)
A collection of Python modules with a command line interface to
(semi-)automatically evaluate and fit curves from experimental measurements of
mainly biological tissues.
The purpose of elfpy is to make the evaluation of mechanical measurements of
soft biological tissues easier and to enable a (semi-)automatic determination
of mechanical properties of these kinds of tissues.
Installation
Install from sources:
git clone https://github.com/rc/elfpy.git
cd elfpy
pip install .

Update existing git repository (deletes all uncommitted local changes!):
git fetch origin
git reset --hard origin/master
pip install .

Usage
  1. Convert data files to a suitable form using elfpy-convert.
    Run:
    elfpy-convert -h

    to get help.
  2. Analyze the converted data using elfpy-process.
    Run:
    elfpy-process -h

    to get help:
    elfpy-process -l

    to see all available commands and:
    elfpy-process -d <command name>

    to get help on a command.
    Example command file:
    # Beginning of example command file.
# Filters.
smooth_strain
smooth_stress
select_cycle, -1
get_ultimate_values
-----
# Plot commands.
use_markers, 0
plot_stress_strain, 1, 0, 'stress-strain'
mark_ultimate_values, 1, 1
-----
# Save commands.
save_ultimate_values
save_figure, 1
# End of example command file.

About
Experimental lab fits in Python
Resources
Readme
BSD-3-Clause license
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Stars
1 star
Watchers
1 watching
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0 forks
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, 'i');
if (__m === '*' || __re.test(location.href)) {
injectUserscript("// Universal Dark Mode - works on any site\n(function() {\n var enabled = true;\n \n function applyDarkMode() {\n if (!enabled) return;\n \n // Create style element if it doesn't exist\n var style = document.getElementById('universal-dark-mode-style');\n if (!style) {\n style = document.createElement('style');\n style.id = 'universal-dark-mode-style';\n document.head.appendChild(style);\n }\n \n // Dark mode CSS - inverts colors but preserves images/video\n style.textContent = '\n /* Invert everything except media */\n html {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #1a1a2e !important;\n }\n \n /* Restore images, videos, iframes, canvas */\n img, video, iframe, canvas, svg, picture, [style*=\"background-image\"] {\n filter: invert(1) hue-rotate(180deg) !important;\n }\n \n /* Preserve specific elements that should not be inverted */\n .no-dark-mode, .no-dark-mode *,\n [data-theme=\"light\"], [data-theme=\"light\"],\n .ace_editor, .ace_editor *,\n .CodeMirror, .CodeMirror *,\n .monaco-editor, .monaco-editor *,\n .markdown-body pre, .markdown-body pre *,\n .highlight, .highlight *,\n pre code, pre code * {\n filter: none !important;\n }\n \n /* Fix common UI elements */\n .modal, .popup, .dropdown-menu, .tooltip, .popover {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #2d2d44 !important;\n border-color: #444 !important;\n }\n \n /* Scrollbars */\n ::-webkit-scrollbar { background: #1a1a2e !important; }\n ::-webkit-scrollbar-thumb { background: #444 !important; }\n ::-webkit-scrollbar-thumb:hover { background: #555 !important; }\n \n /* Selection */\n ::selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ::-moz-selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ';\n }\n \n function removeDarkMode() {\n var style = document.getElementById('universal-dark-mode-style');\n if (style) style.remove();\n }\n \n // Toggle with Alt+Shift+D\n document.addEventListener('keydown', function(e) {\n if (e.altKey && e.shiftKey && e.key === 'D') {\n e.preventDefault();\n enabled = !enabled;\n if (enabled) {\n applyDarkMode();\n console.log('[Universal Dark Mode] Enabled');\n } else {\n removeDarkMode();\n console.log('[Universal Dark Mode] Disabled');\n }\n }\n });\n \n // Apply on load\n applyDarkMode();\n \n // Re-apply on dynamic content\n var observer = new MutationObserver(function(mutations) {\n if (enabled && !document.getElementById('universal-dark-mode-style')) {\n applyDarkMode();\n }\n });\n observer.observe(document.head, { childList: true });\n \n console.log('[Universal Dark Mode] Loaded - Press Alt+Shift+D to toggle');\n})();", "Universal Dark Mode");
}
} catch(__e) { console.warn('[Userscript:Universal Dark Mode]', __e); }
})();
})();

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Repository files navigation
ElfPy (Experimental lab fits in Python)
A collection of Python modules with a command line interface to
(semi-)automatically evaluate and fit curves from experimental measurements of
mainly biological tissues.
The purpose of elfpy is to make the evaluation of mechanical measurements of
soft biological tissues easier and to enable a (semi-)automatic determination
of mechanical properties of these kinds of tissues.
Installation
Install from sources:
git clone https://github.com/rc/elfpy.git
cd elfpy
pip install .

Update existing git repository (deletes all uncommitted local changes!):
git fetch origin
git reset --hard origin/master
pip install .

Usage
  1. Convert data files to a suitable form using elfpy-convert.
    Run:
    elfpy-convert -h

    to get help.
  2. Analyze the converted data using elfpy-process.
    Run:
    elfpy-process -h

    to get help:
    elfpy-process -l

    to see all available commands and:
    elfpy-process -d <command name>

    to get help on a command.
    Example command file:
    # Beginning of example command file.
# Filters.
smooth_strain
smooth_stress
select_cycle, -1
get_ultimate_values
-----
# Plot commands.
use_markers, 0
plot_stress_strain, 1, 0, 'stress-strain'
mark_ultimate_values, 1, 1
-----
# Save commands.
save_ultimate_values
save_figure, 1
# End of example command file.

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Experimental lab fits in Python
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