rxiv-maker 1.18.3__py3-none-any.whl → 1.18.5__py3-none-any.whl

rxiv_maker/__version__.py

@@ -1,3 +1,3 @@
 """Version information."""
 
-__version__ = "1.18.3"
+__version__ = "1.18.5"

rxiv_maker/core/content_processor.py

@@ -256,9 +256,9 @@ class ContentProcessor(RecoveryEnhancedMixin):
         # Supplementary note headers must be processed early (before general headers)
         self.register_processor(
             "supplementary_notes",
-            lambda content, **kwargs: process_supplementary_notes(content)
-            if kwargs.get("is_supplementary", False)
-            else content,
+            lambda content, **kwargs: (
+                process_supplementary_notes(content) if kwargs.get("is_supplementary", False) else content
+            ),
             ProcessorConfig(
                 name="supplementary_notes",
                 priority=ProcessorPriority.NORMAL,
@@ -408,9 +408,9 @@ class ContentProcessor(RecoveryEnhancedMixin):
 
         self.register_processor(
             "restore_supplementary_placeholders",
-            lambda content, **kwargs: restore_supplementary_note_placeholders(content)
-            if kwargs.get("is_supplementary", False)
-            else content,
+            lambda content, **kwargs: (
+                restore_supplementary_note_placeholders(content) if kwargs.get("is_supplementary", False) else content
+            ),
             ProcessorConfig(
                 name="restore_supplementary_placeholders",
                 priority=ProcessorPriority.NORMAL,

rxiv_maker/processors/template_processor.py

@@ -504,20 +504,20 @@ def process_template_replacements(template_content, yaml_metadata, article_md, o
     if content_sections.get("introduction"):
         # If there's an introduction section, use it with "Introduction" header
         main_section_content = content_sections["introduction"]
-        main_section_parts.append(f"\\section*{{Introduction}}\n{main_section_content}")
+        main_section_parts.append(f"\\section*{{Introduction}}\n\n{main_section_content}")
 
         # after_intro mode: insert Methods right after Introduction
         if methods_placement == "after_intro" and methods_content:
-            main_section_parts.append(f"\\section*{{Methods}}\n{methods_content}")
+            main_section_parts.append(f"\\section*{{Methods}}\n\n{methods_content}")
 
     elif content_sections.get("main"):
         # If there's a main section (but no introduction), use it with "Main" header
         main_section_content = content_sections["main"]
-        main_section_parts.append(f"\\section*{{Main}}\n{main_section_content}")
+        main_section_parts.append(f"\\section*{{Main}}\n\n{main_section_content}")
 
         # after_intro mode: insert Methods after Main section if no Introduction exists
         if methods_placement == "after_intro" and methods_content:
-            main_section_parts.append(f"\\section*{{Methods}}\n{methods_content}")
+            main_section_parts.append(f"\\section*{{Methods}}\n\n{methods_content}")
 
     # Include all custom sections (sections that don't map to standard academic paper sections)
     standard_sections = {
@@ -542,7 +542,7 @@ def process_template_replacements(template_content, yaml_metadata, article_md, o
         if section_key not in standard_sections and section_content.strip():
             # Add section header using the original title
             section_title = section_titles.get(section_key, section_key.replace("_", " ").title())
-            custom_section_with_header = f"\\section*{{{section_title}}}\n{section_content}"
+            custom_section_with_header = f"\\section*{{{section_title}}}\n\n{section_content}"
             custom_sections.append(custom_section_with_header)
 
     # Add all custom sections to the main section
@@ -558,7 +558,7 @@ def process_template_replacements(template_content, yaml_metadata, article_md, o
     # Results section
     results_content = content_sections.get("results", "").strip()
     if results_content:
-        results_section = f"\\section*{{Results}}\n{results_content}"
+        results_section = f"\\section*{{Results}}\n\n{results_content}"
     else:
         results_section = ""
     template_content = template_content.replace("<PY-RPL:RESULTS-SECTION>", results_section)
@@ -566,7 +566,7 @@ def process_template_replacements(template_content, yaml_metadata, article_md, o
     # Discussion section
     discussion_content = content_sections.get("discussion", "").strip()
     if discussion_content:
-        discussion_section = f"\\section*{{Discussion}}\n{discussion_content}"
+        discussion_section = f"\\section*{{Discussion}}\n\n{discussion_content}"
     else:
         discussion_section = ""
     template_content = template_content.replace("<PY-RPL:DISCUSSION-SECTION>", discussion_section)
@@ -574,26 +574,26 @@ def process_template_replacements(template_content, yaml_metadata, article_md, o
     # Conclusions section
     conclusions_content = content_sections.get("conclusion", "").strip()
     if conclusions_content:
-        conclusions_section = f"\\section*{{Conclusions}}\n{conclusions_content}"
+        conclusions_section = f"\\section*{{Conclusions}}\n\n{conclusions_content}"
     else:
         conclusions_section = ""
     template_content = template_content.replace("<PY-RPL:CONCLUSIONS-SECTION>", conclusions_section)
 
     # Handle Methods section placement based on configuration
     if methods_placement == "after_results" and methods_content:
-        methods_section = f"\\section*{{Methods}}\n{methods_content}"
+        methods_section = f"\\section*{{Methods}}\n\n{methods_content}"
         template_content = template_content.replace("<PY-RPL:METHODS-AFTER-RESULTS>", methods_section)
     else:
         template_content = template_content.replace("<PY-RPL:METHODS-AFTER-RESULTS>", "")
 
     if methods_placement == "after_discussion" and methods_content:
-        methods_section = f"\\section*{{Methods}}\n{methods_content}"
+        methods_section = f"\\section*{{Methods}}\n\n{methods_content}"
         template_content = template_content.replace("<PY-RPL:METHODS-AFTER-DISCUSSION>", methods_section)
     else:
         template_content = template_content.replace("<PY-RPL:METHODS-AFTER-DISCUSSION>", "")
 
     if methods_placement == "after_bibliography" and methods_content:
-        methods_section = f"\\section*{{Methods}}\n{methods_content}"
+        methods_section = f"\\section*{{Methods}}\n\n{methods_content}"
         template_content = template_content.replace("<PY-RPL:METHODS-AFTER-BIBLIOGRAPHY>", methods_section)
     else:
         template_content = template_content.replace("<PY-RPL:METHODS-AFTER-BIBLIOGRAPHY>", "")

{rxiv_maker-1.18.3.dist-info → rxiv_maker-1.18.5.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: rxiv-maker
-Version: 1.18.3
+Version: 1.18.5
 Summary: Write scientific preprints in Markdown. Generate publication-ready PDFs efficiently.
 Project-URL: Homepage, https://github.com/HenriquesLab/rxiv-maker
 Project-URL: Documentation, https://github.com/HenriquesLab/rxiv-maker#readme
@@ -107,16 +107,22 @@ Rxiv-Maker converts enhanced Markdown into professional PDFs with automated figu
 <summary>🍎 <strong>macOS</strong> (Recommended - includes LaTeX automatically)</summary>
 
 ```bash
-brew tap henriqueslab/formulas
-brew install rxiv-maker
-rxiv check-installation
+brew install henriqueslab/formulas/rxiv-maker
 ```
 
-**Upgrade:**
+**Updating:**
 ```bash
+brew update
 brew upgrade rxiv-maker
 ```
 
+**Verify installation (optional):**
+```bash
+rxiv check-installation  # Verify LaTeX and dependencies
+```
+
+**Benefits:** Simple one-command installation, automatic dependency management (Python 3.13, LaTeX, git, gh), easy updates
+
 > **📖 [Homebrew Formula](https://github.com/HenriquesLab/homebrew-formulas)** - Includes Python, LaTeX (MacTeX), and all dependencies
 
 </details>

{rxiv_maker-1.18.3.dist-info → rxiv_maker-1.18.5.dist-info}/RECORD

@@ -1,5 +1,5 @@
 rxiv_maker/__init__.py,sha256=p04JYC5ZhP6dLXkoWVlKNyiRvsDE1a4C88f9q4xO3tA,3268
-rxiv_maker/__version__.py,sha256=XFwP3WErkuqfqBBIq-SrSdEDxGzEVnddf1X9-UaPB9E,51
+rxiv_maker/__version__.py,sha256=i8ukZW5rVDoXBNiuInaBgxVXM535F7b6jCi26fK-JBw,51
 rxiv_maker/rxiv_maker_cli.py,sha256=9Lu_mhFPXwx5jzAR6StCNxwCm_fkmP5qiOYdNuh_AwI,120
 rxiv_maker/validate.py,sha256=AIzgP59KbCQJqC9WIGfUdVv0xI6ud9g1fFznQkaGz5Q,9373
 rxiv_maker/cli/__init__.py,sha256=Jw0DTFUSofN-02xpVrt1UUzRcgH5NNd-GPNidhmNwpU,77
@@ -59,7 +59,7 @@ rxiv_maker/converters/table_processor.py,sha256=0sCtDVlQwLcAC8_dJMijgVb7DCmtannC
 rxiv_maker/converters/text_formatters.py,sha256=pa2kVAqyPkGh5LViL5Iqqjjqw1ixB0GKBZJloaVBVi0,42816
 rxiv_maker/converters/types.py,sha256=mTLXVTBGfEi2dp_U2maSE7kZQFz_lfmLDQjlMAeU9lE,885
 rxiv_maker/converters/url_processor.py,sha256=xoZrgz7kgRtMzSay_14ZpYEwK9uXj3YloQW9K-G8LAc,6586
-rxiv_maker/core/content_processor.py,sha256=nES8uiFC8k589GOcCtHzHZo84Dcf7I22zrsoocZwOEM,33796
+rxiv_maker/core/content_processor.py,sha256=m_jFgmhajlPKZc4FbVfJ30UOF6IPS3qwjim-2sPV8Dc,33812
 rxiv_maker/core/environment_bootstrap.py,sha256=hG1hAOdu-FGeVsn5NU0j0BY21kRquni4K2Cp6uBpEmw,13601
 rxiv_maker/core/environment_manager.py,sha256=hI8uhqGYd2PDMwHiYJkdaoiqztbATaL-XAklgMaIgfQ,10349
 rxiv_maker/core/error_codes.py,sha256=xbSK2VXPnGgHOndf_O69GpRpblyKnW_ahcmjJYPlz2I,15162
@@ -127,7 +127,7 @@ rxiv_maker/manuscript_utils/figure_utils.py,sha256=FsNtMiA1IOHeA6gQsENmAWLZSAvPp
 rxiv_maker/processors/__init__.py,sha256=8UmaeFkbPfcwAL5MnhN2DcOA2k8iuJu0B5dDA6_pmnA,720
 rxiv_maker/processors/author_processor.py,sha256=jC4qZ9M_GADelkp1v8pk46ESUf4DNraXLfMYGhn_7ZM,10016
 rxiv_maker/processors/markdown_preprocessor.py,sha256=Ez_2lhSFEdJY0CS2SKJJESRfnmSdMq4s0jP2nlFSKN8,11228
-rxiv_maker/processors/template_processor.py,sha256=V47kh5zyiZDPNXBfNkQeyU5r-3MBHM3UMWAjcfgs11s,30316
+rxiv_maker/processors/template_processor.py,sha256=w6VAk_OgW8dTY8riOZ_C-8-6x7Kg1jMnCYda4p8eiE0,30338
 rxiv_maker/processors/yaml_processor.py,sha256=SSXHpwY1Cw81IDN4x40UFtosz-T9l29oh-CZpusmlYo,11499
 rxiv_maker/scripts/__init__.py,sha256=nKsDmj6UAc90uC6sKd-V6O80OMYjAl4Uha9zF_6ayX0,154
 rxiv_maker/scripts/custom_doc_generator.py,sha256=pMkdTI8a4qG8Z3gFUJtPwRuu2i0ioW3pKfs22es0KCk,6311
@@ -194,8 +194,8 @@ rxiv_maker/validators/doi/metadata_comparator.py,sha256=euqHhKP5sHQAdZbdoAahUn6Y
 rxiv_maker/tex/template.tex,sha256=_tPtxrurn3sKTt9Kfa44lPdPyT44vHbDUOGqldU9r2s,1378
 rxiv_maker/tex/style/rxiv_maker_style.bst,sha256=jbVqrJgAm6F88cow5vtZuPBwwmlcYykclTm8RvZIo6Y,24281
 rxiv_maker/tex/style/rxiv_maker_style.cls,sha256=6VDmZE0uvYWog6rcYi2K_NIM9-Pgjx9AFdRg_sTheK0,24374
-rxiv_maker-1.18.3.dist-info/METADATA,sha256=4diEnvxg1lKBn0gx2idAwJHH6Y9qR5IDL_s6BiZwILI,18222
-rxiv_maker-1.18.3.dist-info/WHEEL,sha256=WLgqFyCfm_KASv4WHyYy0P3pM_m7J5L9k2skdKLirC8,87
-rxiv_maker-1.18.3.dist-info/entry_points.txt,sha256=ghCN0hI9A1GlG7QY5F6E-xYPflA8CyS4B6bTQ1YLop0,97
-rxiv_maker-1.18.3.dist-info/licenses/LICENSE,sha256=GSZFoPIhWDNJEtSHTQ5dnELN38zFwRiQO2antBezGQk,1093
-rxiv_maker-1.18.3.dist-info/RECORD,,
+rxiv_maker-1.18.5.dist-info/METADATA,sha256=3MGWQNaVnAJM_7nypR3gtVuh5BTgnCwJ5eZ8S_MTrf8,18432
+rxiv_maker-1.18.5.dist-info/WHEEL,sha256=WLgqFyCfm_KASv4WHyYy0P3pM_m7J5L9k2skdKLirC8,87
+rxiv_maker-1.18.5.dist-info/entry_points.txt,sha256=ghCN0hI9A1GlG7QY5F6E-xYPflA8CyS4B6bTQ1YLop0,97
+rxiv_maker-1.18.5.dist-info/licenses/LICENSE,sha256=GSZFoPIhWDNJEtSHTQ5dnELN38zFwRiQO2antBezGQk,1093
+rxiv_maker-1.18.5.dist-info/RECORD,,