shotgunosine
/
fitlins_tests


			
			
				
					
						
							123456789101112131415161718192021222324252627282930313233343536373839404142434445464748495051525354555657585960616263646566676869707172737475767778798081828384858687888990919293949596979899100101102103104105106107108109110111112113114115116117118119120121122123124125126127128129130131132133134135136137138139140141142143144145146147148149150151152153154155156157158159160161162163164165166167168169170171172173174175176177178179180181182183184185186187188189190191192193194195196197198199200201202203204205206207208209210211212213214215216217218219220221222223224225226227228229230231232233234235236237238239240241242243244245246247248249250251252253254255256257258259260261262263264265266267268269270271272273274275276277278279280281282283284285286287288289290291292293294295296297298299300301302303304305306307308309310311312313314315316317318319320321322323324325326327328329330331332333334335336337338339340341342343344345346347348349350351352353354355356357358359360361362363364365366367368369370371372373374375376377378379380381382383384385386387388389390391392393394395396397398399400401402403404405406407408409410411412413414415416417418419420421422423424425426427428429430431432433434435436437438439
							<?xml version="1.0" encoding="utf-8" ?>
<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd">
<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en">
<head>
<meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
<title>FitLins - -level report</title>
<style type="text/css">
.sub-report-title {}
.summary-heading {}
.run-title {}
.elem-title {}
.elem-desc {}
.elem-filename {}
.warning {
    border: 1px solid #ffaaaa;
    background: #ffe8e8;
    padding: 0.8em;
}
summary.heading-1 {
    font-size: 12pt;
    font-weight: bold;
}
summary.heading-2 {
    font-size: 11pt;
    font-weight: bold;
}
</style>
</head>
<body>
    <div id="summary">
        <h1 class="sub-report-title">Summary</h1>
        <ul class="elem-desc">
            <li>Dataset: Rhyme judgment</li>
            <li>Model: ds003_model001</li>
            <li>Participants (3): 01, 02, 03
        </ul>
    </div>
    <div id="model">
        <h1 class="sub-report-title">Model</h1>
        <details>
        <summary>Model specification</summary>
        <pre>{
  "description": "",
  "input": {
    "task": "rhymejudgment"
  },
  "name": "ds003_model001",
  "steps": [
    {
      "contrasts": [
        {
          "condition_list": [
            "trial_type.word",
            "trial_type.pseudoword"
          ],
          "name": "word_gt_pseudo",
          "type": "t",
          "weights": [
            1,
            -1
          ]
        },
        {
          "condition_list": [
            "trial_type.word",
            "trial_type.pseudoword"
          ],
          "name": "task_vs_baseline",
          "type": "t",
          "weights": [
            0.5,
            0.5
          ]
        }
      ],
      "dummy_contrasts": {
        "conditions": [
          "trial_type.word",
          "trial_type.pseudoword"
        ],
        "type": "t"
      },
      "level": "run",
      "model": {
        "x": [
          "trial_type.word",
          "trial_type.pseudoword",
          "framewise_displacement",
          "trans_x",
          "trans_y",
          "trans_z",
          "rot_x",
          "rot_y",
          "rot_z",
          "a_comp_cor_00",
          "a_comp_cor_01",
          "a_comp_cor_02",
          "a_comp_cor_03",
          "a_comp_cor_04",
          "a_comp_cor_05"
        ]
      },
      "transformations": [
        {
          "input": [
            "trial_type"
          ],
          "name": "Factor"
        },
        {
          "input": [
            "trial_type.word",
            "trial_type.pseudoword"
          ],
          "model": "spm",
          "name": "Convolve"
        }
      ]
    },
    {
      "dummy_contrasts": {
        "type": "FEMA"
      },
      "level": "subject"
    },
    {
      "contrasts": [
        {
          "condition_list": [
            "trial_type.word",
            "trial_type.pseudoword"
          ],
          "name": "any_words",
          "type": "F",
          "weights": [
            [
              1,
              0
            ],
            [
              0,
              1
            ]
          ]
        }
      ],
      "dummy_contrasts": {
        "conditions": [
          "word_gt_pseudo",
          "task_vs_baseline"
        ],
        "type": "t"
      },
      "level": "dataset"
    }
  ]
}</pre>
        </details>

        <!-- { % for step in steps % } -->
        
        <h2>Run level</h2>

        <!-- { % if loop.first %} -->
        <h3>Design matrices</h3>
        <p>A design matrix was generated for each run. All but the
        first are collapsed, but each should be inspected for correctness.
        
        <details open>
        <summary class="heading-1">Subject: 01, Task: rhymejudgment</summary>
        <div class="warning">
    The following confounds had NaN values for the first volume: framewise_displacement.
    The mean of non-zero values for the remaining entries was imputed.
    If another strategy is desired, it must be explicitly specified in
    the model.
</div>

        <img src="sub-01/figures/sub-01_task-rhymejudgment_design.svg" />
        <h4>Correlation matrix</h4>
        
        <p>The correlation matrix of a design matrix shows the correlation between
        each pair of regressors. Very high or low correlations among variables of
        interest (top left) or between variables of interest and nuisance regressors
        (top right) can indicate deficiency in the design. High correlations among
        nuisance regressors will generally have little effect on the model.
        </p>
        
        <img src="sub-01/figures/sub-01_task-rhymejudgment_corr.svg" />
        </details>
        
        <details>
        <summary><em>...</em></summary>
        
        
        <details>
        <summary class="heading-1">Subject: 02, Task: rhymejudgment</summary>
        <div class="warning">
    The following confounds had NaN values for the first volume: framewise_displacement.
    The mean of non-zero values for the remaining entries was imputed.
    If another strategy is desired, it must be explicitly specified in
    the model.
</div>

        <img src="sub-02/figures/sub-02_task-rhymejudgment_design.svg" />
        <h4>Correlation matrix</h4>
        
        <img src="sub-02/figures/sub-02_task-rhymejudgment_corr.svg" />
        </details>
        
        
        <details>
        <summary class="heading-1">Subject: 03, Task: rhymejudgment</summary>
        <div class="warning">
    The following confounds had NaN values for the first volume: framewise_displacement.
    The mean of non-zero values for the remaining entries was imputed.
    If another strategy is desired, it must be explicitly specified in
    the model.
</div>

        <img src="sub-03/figures/sub-03_task-rhymejudgment_design.svg" />
        <h4>Correlation matrix</h4>
        
        <img src="sub-03/figures/sub-03_task-rhymejudgment_corr.svg" />
        </details>
        
        
        </details>
        <!-- { % endif %} -->

        <h3>Contrasts</h3>
        <p>A contrast matrix was generated for each run. Except
        in very rare cases, these should be identical, so these should be
        inspected to ensure no unexpected differences are present.</p>
        
        <details open>
        <summary class="heading-1">Subject: 01, Task: rhymejudgment</summary>
        <img src="sub-01/figures/sub-01_task-rhymejudgment_contrasts.svg" />
        </details>
        
        <details>
        <summary><em>...</em></summary>
        
        
        <details>
        <summary class="heading-1">Subject: 02, Task: rhymejudgment</summary>
        <img src="sub-02/figures/sub-02_task-rhymejudgment_contrasts.svg" />
        </details>
        
        
        <details>
        <summary class="heading-1">Subject: 03, Task: rhymejudgment</summary>
        <img src="sub-03/figures/sub-03_task-rhymejudgment_contrasts.svg" />
        </details>
        
        
        </details>

        <!-- { % endfor %} -->
    </div>
    <div id="contrasts">
        <h1 class="sub-report-title">Contrasts</h1>

        
        <h2>Run level</h2>
        
        <h3>Subject: 01, Task: rhymejudgment</h3>
        
        <h4>word &gt; pseudo</h4>
        
        <img src="sub-01/figures/sub-01_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-wordGtPseudo_stat-FEMA_ortho.png" />
        
        
        <h4>task vs. baseline</h4>
        
        <img src="sub-01/figures/sub-01_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-taskVsBaseline_stat-FEMA_ortho.png" />
        
        
        <h4>trial_type.word</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        <h4>trial_type.pseudoword</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        
        <h3>Subject: 02, Task: rhymejudgment</h3>
        
        <h4>word &gt; pseudo</h4>
        
        <img src="sub-02/figures/sub-02_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-wordGtPseudo_stat-FEMA_ortho.png" />
        
        
        <h4>task vs. baseline</h4>
        
        <img src="sub-02/figures/sub-02_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-taskVsBaseline_stat-FEMA_ortho.png" />
        
        
        <h4>trial_type.word</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        <h4>trial_type.pseudoword</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        
        <h3>Subject: 03, Task: rhymejudgment</h3>
        
        <h4>word &gt; pseudo</h4>
        
        <img src="sub-03/figures/sub-03_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-wordGtPseudo_stat-FEMA_ortho.png" />
        
        
        <h4>task vs. baseline</h4>
        
        <img src="sub-03/figures/sub-03_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-taskVsBaseline_stat-FEMA_ortho.png" />
        
        
        <h4>trial_type.word</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        <h4>trial_type.pseudoword</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        
        
        <h2>Subject level</h2>
        
        <h3>Subject: 01, Task: rhymejudgment</h3>
        
        <h4>task vs. baseline</h4>
        
        <img src="sub-01/figures/sub-01_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-taskVsBaseline_stat-FEMA_ortho.png" />
        
        
        <h4>trial_type.pseudoword</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        <h4>trial_type.word</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        <h4>word &gt; pseudo</h4>
        
        <img src="sub-01/figures/sub-01_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-wordGtPseudo_stat-FEMA_ortho.png" />
        
        
        
        <h3>Subject: 02, Task: rhymejudgment</h3>
        
        <h4>task vs. baseline</h4>
        
        <img src="sub-02/figures/sub-02_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-taskVsBaseline_stat-FEMA_ortho.png" />
        
        
        <h4>trial_type.pseudoword</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        <h4>trial_type.word</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        <h4>word &gt; pseudo</h4>
        
        <img src="sub-02/figures/sub-02_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-wordGtPseudo_stat-FEMA_ortho.png" />
        
        
        
        <h3>Subject: 03, Task: rhymejudgment</h3>
        
        <h4>task vs. baseline</h4>
        
        <img src="sub-03/figures/sub-03_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-taskVsBaseline_stat-FEMA_ortho.png" />
        
        
        <h4>trial_type.pseudoword</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        <h4>trial_type.word</h4>
        
        <p> Missing contrast skipped (used: <code>--drop-missing</code>) </p>
        
        
        <h4>word &gt; pseudo</h4>
        
        <img src="sub-03/figures/sub-03_task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-wordGtPseudo_stat-FEMA_ortho.png" />
        
        
        
        
        <h2>Dataset level</h2>
        
        <h3>Task: rhymejudgment</h3>
        
        <h4>any_words</h4>
        
        <img src="figures/task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-anyWords_stat-F_ortho.png" />
        
        
        <h4>word &gt; pseudo</h4>
        
        <img src="figures/task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-wordGtPseudo_stat-t_ortho.png" />
        
        
        <h4>task vs. baseline</h4>
        
        <img src="figures/task-rhymejudgment_space-MNI152NLin2009cAsym_contrast-taskVsBaseline_stat-t_ortho.png" />
        
        
        
        
    </div>
    <div id="about">
        <h1 class="sub-report-title">About</h1>
        <ul>
            <li>Fitlins version: 0.8.0+155.gaf2460c</li>
            <li>Fitlins command: <tt>/gpfs/gsfs11/users/MBDU/midla/env/bin/fitlins ds003/ds003_fmriprep/sourcedata ds003/nistats_blurto/out dataset -d ds003/ds003_fmriprep/ -m /data/MBDU/nielsond/dccc2019/try_gnode/fitlins_tests/ds003/models/model-001_smdl.json -w /lscratch/12128095/nistats_blurto --participant-label 01 02 03 --space MNI152NLin2009cAsym --estimator nistats --n-cpus 8 --mem-gb 8 -vv -s 5.0:l1:isoblurto</tt></li>
            <li>Date processed: 2021-04-20 11:13:45 -0400</li>
        </ul>
    </div>
</body>
</html>